SMED30028317

Overview


Name	SMED30028317
Smed ID	SMED30028317
Length (bp)	511

Neoblast Clusters

▻ Sub-lethal Irradiated Surviving X1 and X2 Cell Population

Overview

Single cell RNA-seq of pluripotent neoblasts and its early progenies

We isolated X1 neoblasts cells enriched in high piwi-1 expression (Neoblast Population), and profiled ∼7,614 individual cells via scRNA-seq. Unsupervised analyses uncovered 12 distinct classes from 7,088 high-quality cells. We designated these classes Nb1 to Nb12 and ordered them based on high (Nb1) to low (Nb12) piwi-1 expression levels. We further defined groups of genes that best classified the cells parsed into 12 distinct cell clusters to generate a scaled expression heat map of discriminative gene sets for each cluster. Expression of each cluster’s gene signatures was validated using multiplex fluorescence in situ hybridization (FISH) co-stained with piwi-1 and largely confirmed the cell clusters revealed by scRNA-seq.

We also tested sub-lethal irradiation exposure. To profile rare pluripotent stem cells (PSCs) and avoid interference from immediate progenitor cells, we determined a time point after sub-lethal irradiation (7 DPI) with minimal piwi-1+ cells, followed by isolation and single-cell RNA-seq of 1,200 individual cells derived from X1 (Piwi-1 high) and X2 (Piwi-1 low) cell populations (Sub-lethal Irradiated Surviving X1 and X2 Cell Population)

Explore this single cell expression dataset with our NB Cluster Shiny App

Neoblast Population

t-SNE plot shows two-dimensional representation of global gene expression relationships among all neoblasts (n = 7,088 after filter). Cluster identity was assigned based on the top 10 marker genes of each cluster (Table S2), followed by inspection of RNA in situ hybridization patterns. Neoblast groups, Nb.

Expression of SMED30028317 (SMED30028317) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30028317 (SMED30028317) in cells (dots) of each of the 12 neoblast clusters.

Sub-lethal Irradiated Surviving X1 and X2 Cell Population

t-SNE plot of surviving X1 and X2 cells (n = 1,039 after QC filter) after sub-lethal irradiation. Colors indicate unbiased cell classification via graph-based clustering. SL, sub-lethal irradiated cell groups.

Expression of SMED30028317 (SMED30028317) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30028317 (SMED30028317) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

Embryonic Expression

Davies et. al., 2017

Hover the mouse over a column in the graph to view average RPKM values per sample.
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Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult.
For further information about sample preparation and analysis for the single animal RNA-Seq experiment, please refer to the Materials and Methods

Anatomical Expression

PAGE et. al., 2020

SMED30028317

has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGE

PAGE Curations: 3

Expressed In	Reference Transcript	Gene Models	Published Transcript	Transcriptome	Publication
X1 cell	SMED30028317	h1SMcG0005109	SmedASXL_017456	SmedAsxl_ww_GCZZ01	PMID:26114597 Zhu et al., 2015
X1 cell	SMED30028317	h1SMcG0005109	SmedASXL_017455	SmedAsxl_ww_GCZZ01	PMID:26114597 Zhu et al., 2015
zeta neoblast	SMED30028317	h1SMcG0005109	dd_Smed_v4_8024_0_1	dd_Smed_v4	PMID:28292427 Wurtzel et al., 2017

Note: Hover over icons to view figure legend

Alignments

SMED30028317 aligns in the following genomic locations:


Alignment Location	Alignment Score
v31.015275:7377..9742 -	2526

Homology

[Close]

BLAST of SMED30028317 vs. Ensembl Human
Match: FANCI (FA complementation group I [Source:HGNC Symbol;Acc:HGNC:25568])

HSP 1 Score: 56.9954 bits (136), Expect = 1.924e-9
Identity = 25/60 (41.67%), Postives = 40/60 (66.67%), Query Frame = -1

Query:  191 KKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRI 370
            K+    + + + R  +E + +PN +FAIEQY+++LI L K SK++ M H+K   SRDF+I
Sbjct: 1230 KEKPAAVATAMARVLRETKPIPNLIFAIEQYEKFLIHLSKKSKVNLMQHMKLSTSRDFKI 1289

[Close]

BLAST of SMED30028317 vs. Ensembl Human
Match: FANCI (FA complementation group I [Source:HGNC Symbol;Acc:HGNC:25568])

HSP 1 Score: 56.9954 bits (136), Expect = 1.935e-9
Identity = 25/60 (41.67%), Postives = 40/60 (66.67%), Query Frame = -1

Query:  191 KKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRI 370
            K+    + + + R  +E + +PN +FAIEQY+++LI L K SK++ M H+K   SRDF+I
Sbjct: 1170 KEKPAAVATAMARVLRETKPIPNLIFAIEQYEKFLIHLSKKSKVNLMQHMKLSTSRDFKI 1229

[Close]

BLAST of SMED30028317 vs. Ensembl Human
Match: FANCI (FA complementation group I [Source:HGNC Symbol;Acc:HGNC:25568])

HSP 1 Score: 56.9954 bits (136), Expect = 2.139e-9
Identity = 25/60 (41.67%), Postives = 40/60 (66.67%), Query Frame = -1

Query:  191 KKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRI 370
            K+    + + + R  +E + +PN +FAIEQY+++LI L K SK++ M H+K   SRDF+I
Sbjct:  996 KEKPAAVATAMARVLRETKPIPNLIFAIEQYEKFLIHLSKKSKVNLMQHMKLSTSRDFKI 1055

[Close]

BLAST of SMED30028317 vs. Ensembl Zebrafish
Match: fanci (FA complementation group I [Source:ZFIN;Acc:ZDB-GENE-030131-2905])

HSP 1 Score: 52.373 bits (124), Expect = 5.068e-8
Identity = 24/54 (44.44%), Postives = 38/54 (70.37%), Query Frame = -1

Query:  164 KEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSL 325
            +E + +PN +F IEQY+++LI L K SK++ M ++K   SRDFRI+   L+ +L
Sbjct: 1248 RETKAIPNLIFNIEQYEKFLILLSKKSKVNLMQYMKLSTSRDFRINAATLEAAL 1301

[Close]

BLAST of SMED30028317 vs. Ensembl Xenopus
Match: FANCI (polymerase (DNA directed), gamma [Source:NCBI gene;Acc:100038061])

HSP 1 Score: 56.6102 bits (135), Expect = 2.718e-9
Identity = 30/63 (47.62%), Postives = 42/63 (66.67%), Query Frame = -1

Query:  158 SQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDE 346
            ++I R TK I   PN +FAIEQY+++LI L K SK++ M ++K   SRDFRI+   L  +L E
Sbjct: 1177 AKILRDTKPI---PNLIFAIEQYEKFLIHLSKKSKVNLMQYMKLSTSRDFRINAATLDAALQE 1236

[Close]

BLAST of SMED30028317 vs. Ensembl Xenopus
Match: FANCI (polymerase (DNA directed), gamma [Source:NCBI gene;Acc:100038061])

HSP 1 Score: 56.6102 bits (135), Expect = 2.796e-9
Identity = 30/63 (47.62%), Postives = 42/63 (66.67%), Query Frame = -1

Query:  158 SQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDE 346
            ++I R TK I   PN +FAIEQY+++LI L K SK++ M ++K   SRDFRI+   L  +L E
Sbjct: 1177 AKILRDTKPI---PNLIFAIEQYEKFLIHLSKKSKVNLMQYMKLSTSRDFRINAATLDAALQE 1236

[Close]

BLAST of SMED30028317 vs. Ensembl Xenopus
Match: FANCI (polymerase (DNA directed), gamma [Source:NCBI gene;Acc:100038061])

HSP 1 Score: 56.225 bits (134), Expect = 4.155e-9
Identity = 30/63 (47.62%), Postives = 42/63 (66.67%), Query Frame = -1

Query:  158 SQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDE 346
            ++I R TK I   PN +FAIEQY+++LI L K SK++ M ++K   SRDFRI+   L  +L E
Sbjct: 1240 AKILRDTKPI---PNLIFAIEQYEKFLIHLSKKSKVNLMQYMKLSTSRDFRINAATLDAALQE 1299

[Close]

BLAST of SMED30028317 vs. Ensembl Xenopus
Match: FANCI (polymerase (DNA directed), gamma [Source:NCBI gene;Acc:100038061])

HSP 1 Score: 56.225 bits (134), Expect = 4.197e-9
Identity = 30/63 (47.62%), Postives = 42/63 (66.67%), Query Frame = -1

Query:  158 SQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDE 346
            ++I R TK I   PN +FAIEQY+++LI L K SK++ M ++K   SRDFRI+   L  +L E
Sbjct: 1249 AKILRDTKPI---PNLIFAIEQYEKFLIHLSKKSKVNLMQYMKLSTSRDFRINAATLDAALQE 1308

[Close]

BLAST of SMED30028317 vs. Ensembl Xenopus
Match: FANCI (polymerase (DNA directed), gamma [Source:NCBI gene;Acc:100038061])

HSP 1 Score: 55.8398 bits (133), Expect = 4.298e-9
Identity = 30/63 (47.62%), Postives = 42/63 (66.67%), Query Frame = -1

Query:  158 SQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDE 346
            ++I R TK I   PN +FAIEQY+++LI L K SK++ M ++K   SRDFRI+   L  +L E
Sbjct: 1176 AKILRDTKPI---PNLIFAIEQYEKFLIHLSKKSKVNLMQYMKLSTSRDFRINAATLDAALQE 1235

[Close]

BLAST of SMED30028317 vs. Ensembl Mouse
Match: Fanci (Fanconi anemia, complementation group I [Source:MGI Symbol;Acc:MGI:2384790])

HSP 1 Score: 57.7658 bits (138), Expect = 7.174e-10
Identity = 25/61 (40.98%), Postives = 43/61 (70.49%), Query Frame = -1

Query:  191 AKKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRI 373
            ++K +  + + + +  +E + +PN VFAIEQY+++LI+L K SK++ M H+K   SRDF+I
Sbjct: 1228 SEKEKAAVSTTMAKVLRETKPIPNLVFAIEQYEKFLIQLSKKSKVNLMQHMKLSTSRDFKI 1288

[Close]

BLAST of SMED30028317 vs. UniProt/SwissProt
Match: sp|Q8K368|FANCI_MOUSE (Fanconi anemia group I protein homolog OS=Mus musculus OX=10090 GN=Fanci PE=1 SV=2)

HSP 1 Score: 57.7658 bits (138), Expect = 5.018e-9
Identity = 25/61 (40.98%), Postives = 43/61 (70.49%), Query Frame = -1

Query:  191 AKKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRI 373
            ++K +  + + + +  +E + +PN VFAIEQY+++LI+L K SK++ M H+K   SRDF+I
Sbjct: 1228 SEKEKAAVSTTMAKVLRETKPIPNLVFAIEQYEKFLIQLSKKSKVNLMQHMKLSTSRDFKI 1288

[Close]

BLAST of SMED30028317 vs. UniProt/SwissProt
Match: sp|Q9NVI1|FANCI_HUMAN (Fanconi anemia group I protein OS=Homo sapiens OX=9606 GN=FANCI PE=1 SV=4)

HSP 1 Score: 56.9954 bits (136), Expect = 9.240e-9
Identity = 25/60 (41.67%), Postives = 40/60 (66.67%), Query Frame = -1

Query:  191 KKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRI 370
            K+    + + + R  +E + +PN +FAIEQY+++LI L K SK++ M H+K   SRDF+I
Sbjct: 1230 KEKPAAVATAMARVLRETKPIPNLIFAIEQYEKFLIHLSKKSKVNLMQHMKLSTSRDFKI 1289

[Close]

BLAST of SMED30028317 vs. TrEMBL
Match: A0A2H1C5V4 (FANCI_S4 domain-containing protein OS=Fasciola hepatica OX=6192 GN=D915_10147 PE=4 SV=1)

HSP 1 Score: 70.8626 bits (172), Expect = 1.322e-11
Identity = 35/70 (50.00%), Postives = 48/70 (68.57%), Query Frame = -1

Query:  131 IGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDD 340
            I R+ KE R +P  VFAIEQ++R+L++L K SKI+ M +VK   SRDFRI+   +Q  L+ + TL LS D
Sbjct:   55 ISRSIKESRSIPQLVFAIEQFERFLLQLSKKSKINLMNNVKLAVSRDFRINQAAVQAQLERSATLSLSSD 124

[Close]

BLAST of SMED30028317 vs. TrEMBL
Match: A0A4E0RX04 (Fanconi anemia group I protein OS=Fasciola hepatica OX=6192 GN=D915_006115 PE=4 SV=1)

HSP 1 Score: 70.4774 bits (171), Expect = 6.625e-11
Identity = 36/76 (47.37%), Postives = 50/76 (65.79%), Query Frame = -1

Query:  131 NTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDD 358
            N   + I R+ KE R +P  VFAIEQ++R+L++L K SKI+ M +VK   SRDFRI+   +Q  L+ + TL LS D
Sbjct: 1467 NISQNLISRSIKESRSIPQLVFAIEQFERFLLQLSKKSKINLMNNVKLAVSRDFRINQAAVQAQLERSATLSLSSD 1542

[Close]

BLAST of SMED30028317 vs. TrEMBL
Match: A0A452J2Q3 (FA complementation group I OS=Gopherus agassizii OX=38772 GN=FANCI PE=4 SV=1)

HSP 1 Score: 69.707 bits (169), Expect = 1.147e-10
Identity = 34/87 (39.08%), Postives = 55/87 (63.22%), Query Frame = -1

Query:   92 IGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLS----DDETVIGSDPGEGDE 340
            + +  +E + +PN +FA+EQY+++LI L K SK++ M ++K   SRDFRI+++ L+ +L EN T D      +D+TV    P E  E
Sbjct: 1221 MAKVLRETKPIPNLIFAVEQYEKFLIHLSKKSKVNLMQYMKLSTSRDFRINVSTLESALQENNTEDAENEPDNDQTVAAEQPAESQE 1307

[Close]

BLAST of SMED30028317 vs. TrEMBL
Match: A0A4D9F0Z3 (Tumor necrosis factor alpha-induced protein 8 OS=Platysternon megacephalum OX=55544 GN=DR999_PMT03557 PE=4 SV=1)

HSP 1 Score: 69.3218 bits (168), Expect = 1.671e-10
Identity = 35/87 (40.23%), Postives = 54/87 (62.07%), Query Frame = -1

Query:   92 IGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLS----DDETVIGSDPGEGDE 340
            + +  +E + +PN +FAIEQY+++LI L K SK++ M ++K   SRDFRI+ + L+ +L EN T D      +D+TV    P E  E
Sbjct: 1250 MAKVLRETKPIPNLIFAIEQYEKFLIHLSKKSKVNLMQYMKLSTSRDFRINASTLESALQENTTEDAENEPDNDQTVAAEQPAESQE 1336

[Close]

BLAST of SMED30028317 vs. TrEMBL
Match: A0A3B3HFA9 (FA complementation group I OS=Oryzias latipes OX=8090 GN=fanci PE=4 SV=1)

HSP 1 Score: 67.0106 bits (162), Expect = 1.140e-9
Identity = 47/123 (38.21%), Postives = 67/123 (54.47%), Query Frame = -1

Query:   38 ESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEEMIINENAVDLPPKKKQR 406
            E+   D+ K K K   NT  S   +  +E +  PN +F+IEQY++YLI L K SK++ M ++K   SRDFRI+ T L+ +L E    D S + T   +  GEG +E           PKKK+R
Sbjct: 1121 ETAEGDEKKKKRKNDVNTAAS--AKLLRETKATPNLIFSIEQYEKYLITLSKKSKVNLMQYMKLSTSRDFRINATTLEAALQEQ---DHSQETT--ETQNGEGTQE-----------PKKKKR 1225

[Close]

BLAST of SMED30028317 vs. Ensembl Cavefish
Match: fanci (FA complementation group I [Source:NCBI gene;Acc:103039599])

HSP 1 Score: 49.2914 bits (116), Expect = 4.971e-7
Identity = 26/62 (41.94%), Postives = 41/62 (66.13%), Query Frame = -1

Query:  164 DSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSL 349
             ++I R TK I   P+ ++ IEQY+++LI L K SK++ M ++K   SRDFRI+   LQ ++
Sbjct: 1243 SAKIIRQTKAI---PSLIYNIEQYEKFLILLSKKSKVNLMQYMKLSTSRDFRINAATLQTAM 1301

[Close]

BLAST of SMED30028317 vs. Ensembl Nematostella
Match: EDO31112 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SYU5])

HSP 1 Score: 60.8474 bits (146), Expect = 3.655e-12
Identity = 26/58 (44.83%), Postives = 42/58 (72.41%), Query Frame = -1

Query:  164 GRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSL 337
             +  KE++ +PN ++AIEQY+++LI+L K SKI+ M H+K   +RDFRI+   L+ +L
Sbjct:  121 AKVMKEMKFIPNLIYAIEQYEKFLIQLSKKSKINLMEHIKRSTARDFRINGATLEAAL 178

[Close]

BLAST of SMED30028317 vs. Ensembl Medaka
Match: fanci (FA complementation group I [Source:NCBI gene;Acc:101156650])

HSP 1 Score: 67.0106 bits (162), Expect = 4.290e-13
Identity = 47/123 (38.21%), Postives = 67/123 (54.47%), Query Frame = -1

Query:   38 ESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEEMIINENAVDLPPKKKQR 406
            E+   D+ K K K   NT  S   +  +E +  PN +F+IEQY++YLI L K SK++ M ++K   SRDFRI+ T L+ +L E    D S + T   +  GEG +E           PKKK+R
Sbjct: 1121 ETAEGDEKKKKRKNDVNTAAS--AKLLRETKATPNLIFSIEQYEKYLITLSKKSKVNLMQYMKLSTSRDFRINATTLEAALQEQ---DHSQETT--ETQNGEGTQE-----------PKKKKR 1225

[Close]

Query:   38 ESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEEMIINENAVDLPPKKKQR 406
            E+   D+ K K K   NT  S   +  +E +  PN +F+IEQY++YLI L K SK++ M ++K   SRDFRI+ T L+ +L E    D S + T   +  GEG +E           PKKK+R
Sbjct: 1121 ETAEGDEKKKKRKNDVNTAAS--AKLLRETKATPNLIFSIEQYEKYLITLSKKSKVNLMQYMKLSTSRDFRINATTLEAALQEQ---DHSQETT--ETQNGEGTQE-----------PKKKKR 1225

[Close]

BLAST of SMED30028317 vs. Planmine SMEST
Match: SMESG000053300.1 (SMESG000053300.1)

HSP 1 Score: 226.098 bits (575), Expect = 9.182e-77
Identity = 134/164 (81.71%), Postives = 137/164 (83.54%), Query Frame = -1

Query:   20 GFFSYFQYYQKIESISRVNSXXXXXXXXXXXXXDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEEMIINENAVDLPPKKKQRICNTDQ 511
            GFFSYFQYYQKIESISRVNSKENKKNNDENENNDLESQNPDQSKIKAKKSRNTLDSQ+  T          +F    + R          IDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEEMIINENAVDLPPKKKQRICNTDQ
Sbjct:    9 GFFSYFQYYQKIESISRVNSKENKKNNDENENNDLESQNPDQSKIKAKKSRNTLDSQVKNTWM--------IFCALSFFRL---------IDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEEMIINENAVDLPPKKKQRICNTDQ 155

[Close]

BLAST of SMED30028317 vs. Planmine SMEST
Match: SMESG000053319.1 (SMESG000053319.1)

HSP 1 Score: 230.335 bits (586), Expect = 3.874e-75
Identity = 131/132 (99.24%), Postives = 131/132 (99.24%), Query Frame = -1

Query:   89 QKIESISRVNSXXXXXXXXXXXXXDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEE 484
            QKIESISRVNSKENKKNNDENENNDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEE
Sbjct:  260 QKIESISRVNSKENKKNNDENENNDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPNLVFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEE 391

[Close]

BLAST of SMED30028317 vs. Planmine SMEST
Match: SMESG000053319.1 (SMESG000053319.1)

HSP 1 Score: 229.95 bits (585), Expect = 3.887e-75
Identity = 131/132 (99.24%), Postives = 131/132 (99.24%), Query Frame = -1

Query:   89 QKIESISRVNSXXXXXXXXXXXXXDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEE 484
            QKIESISRVNSKENKKNNDENENNDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEE
Sbjct:  257 QKIESISRVNSKENKKNNDENENNDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPNLVFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEE 388

[Close]

BLAST of SMED30028317 vs. Planmine SMEST
Match: SMESG000053319.1 (SMESG000053319.1)

HSP 1 Score: 230.335 bits (586), Expect = 4.833e-75
Identity = 131/132 (99.24%), Postives = 131/132 (99.24%), Query Frame = -1

Query:   89 QKIESISRVNSXXXXXXXXXXXXXDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN*VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEE 484
            QKIESISRVNSKENKKNNDENENNDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPN VFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEE
Sbjct:  270 QKIESISRVNSKENKKNNDENENNDLESQNPDQSKIKAKKSRNTLDSQIGRTTKEIRLMPNLVFAIEQYQRYLIELQKVSKIDFMCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEE 401

[Close]

BLAST of SMED30028317 vs. Planmine SMEST
Match: SMESG000053315.1 (SMESG000053315.1)

HSP 1 Score: 145.206 bits (365), Expect = 7.977e-46
Identity = 71/71 (100.00%), Postives = 71/71 (100.00%), Query Frame = -1

Query:   20 MCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEEMIINENAVDLPPKKKQRICNTDQ 232
            MCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEEMIINENAVDLPPKKKQRICNTDQ
Sbjct:    1 MCHVKTLNSRDFRIDLTKLQQSLDENKTLDLSDDETVIGSDPGEGDEEMIINENAVDLPPKKKQRICNTDQ 71

The following BLAST results are available for this feature:

BLAST of SMED30028317 vs. Ensembl Human
BLAST of SMED30028317 vs. Ensembl Celegans
BLAST of SMED30028317 vs. Ensembl Fly
BLAST of SMED30028317 vs. Ensembl Zebrafish
BLAST of SMED30028317 vs. Ensembl Xenopus
BLAST of SMED30028317 vs. Ensembl Mouse
BLAST of SMED30028317 vs. UniProt/SwissProt
BLAST of SMED30028317 vs. TrEMBL
BLAST of SMED30028317 vs. Ensembl Cavefish
BLAST of SMED30028317 vs. Ensembl Sea Lamprey
BLAST of SMED30028317 vs. Ensembl Yeast
BLAST of SMED30028317 vs. Ensembl Nematostella
BLAST of SMED30028317 vs. Ensembl Medaka
BLAST of SMED30028317 vs. Planmine SMEST

BLAST of SMED30028317 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 3


Match Name	E-value	Identity	Description
FANCI	1.924e-9	41.67	FA complementation group I [Source:HGNC Symbol;Acc...	[more]
FANCI	1.935e-9	41.67	FA complementation group I [Source:HGNC Symbol;Acc...	[more]
FANCI	2.139e-9	41.67	FA complementation group I [Source:HGNC Symbol;Acc...	[more]

BLAST of SMED30028317 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30028317 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30028317 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 1


Match Name	E-value	Identity	Description
fanci	5.068e-8	44.44	FA complementation group I [Source:ZFIN;Acc:ZDB-GE...	[more]

BLAST of SMED30028317 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 5


Match Name	E-value	Identity	Description
FANCI	2.718e-9	47.62	polymerase (DNA directed), gamma [Source:NCBI gene...	[more]
FANCI	2.796e-9	47.62	polymerase (DNA directed), gamma [Source:NCBI gene...	[more]
FANCI	4.155e-9	47.62	polymerase (DNA directed), gamma [Source:NCBI gene...	[more]
FANCI	4.197e-9	47.62	polymerase (DNA directed), gamma [Source:NCBI gene...	[more]
FANCI	4.298e-9	47.62	polymerase (DNA directed), gamma [Source:NCBI gene...	[more]

BLAST of SMED30028317 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 1


Match Name	E-value	Identity	Description
Fanci	7.174e-10	40.98	Fanconi anemia, complementation group I [Source:MG...	[more]

BLAST of SMED30028317 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 2


Match Name	E-value	Identity	Description
sp\|Q8K368\|FANCI_MOUSE	5.018e-9	40.98	Fanconi anemia group I protein homolog OS=Mus musc...	[more]
sp\|Q9NVI1\|FANCI_HUMAN	9.240e-9	41.67	Fanconi anemia group I protein OS=Homo sapiens OX=...	[more]

BLAST of SMED30028317 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5


Match Name	E-value	Identity	Description
A0A2H1C5V4	1.322e-11	50.00	FANCI_S4 domain-containing protein OS=Fasciola hep...	[more]
A0A4E0RX04	6.625e-11	47.37	Fanconi anemia group I protein OS=Fasciola hepatic...	[more]
A0A452J2Q3	1.147e-10	39.08	FA complementation group I OS=Gopherus agassizii O...	[more]
A0A4D9F0Z3	1.671e-10	40.23	Tumor necrosis factor alpha-induced protein 8 OS=P...	[more]
A0A3B3HFA9	1.140e-9	38.21	FA complementation group I OS=Oryzias latipes OX=8...	[more]

BLAST of SMED30028317 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 1


Match Name	E-value	Identity	Description
fanci	4.971e-7	41.94	FA complementation group I [Source:NCBI gene;Acc:1...	[more]

BLAST of SMED30028317 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30028317 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of SMED30028317 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1


Match Name	E-value	Identity	Description
EDO31112	3.655e-12	44.83	Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7...	[more]

BLAST of SMED30028317 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 2


Match Name	E-value	Identity	Description
fanci	4.290e-13	38.21	FA complementation group I [Source:NCBI gene;Acc:1...	[more]
fanci	4.290e-13	38.21	FA complementation group I [Source:NCBI gene;Acc:1...	[more]

BLAST of SMED30028317 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5


Match Name	E-value	Identity	Description
SMESG000053300.1	9.182e-77	81.71	SMESG000053300.1	[more]
SMESG000053319.1	3.874e-75	99.24	SMESG000053319.1	[more]
SMESG000053319.1	3.887e-75	99.24	SMESG000053319.1	[more]
SMESG000053319.1	4.833e-75	99.24	SMESG000053319.1	[more]
SMESG000053315.1	7.977e-46	100.00	SMESG000053315.1	[more]

Analyses

This transcript is derived from or has results from the following analyses


Analysis Name	Date Performed
Embryonic Stages	2016-07-25
Schmidtea mediterranea smed_20140614 BLASTX Human e!99	2016-08-08
Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99	2016-08-08
Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL	2020-05-01
Schmidtea mediterranea Sexual smed_20140614 transcriptome	2016-07-25
Schmidtea mediteranean smed_20140614 Interproscan	2020-05-01
Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99	2020-05-08
Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST	2020-05-08

Sequences

The following sequences are available for this feature:

transcript sequence

transcript sequence

>SMED30028317 ID=SMED30028317|Name=SMED30028317|organism=Schmidtea mediterranea sexual|type=transcript|length=511bp
TCCGAAGACATTTATTTTATTGGTCTGTATTACAAATTCTTTGCTTCTTT
TTCGGTGGCAAATCGACAGCATTTTCATTTATAATCATTTCTTCATCTCC
TTCACCTGGATCACTTCCTATAACCGTTTCATCATCAGACAGATCCAACG
TTTTGTTTTCATCCAAAGACTGCTGCAGTTTGGTTAAATCTATTCGAAAA
TCTCTACTGTTGAGAGTTTTCACGTGACACATAAAATCGATTTTAGAAAC
CTTTTGCAATTCGATAAGATATCTTTGGTACTGTTCAATAGCAAAAACTT
AATTCGGCATTAGACGAATTTCTTTTGTAGTCCTACCAATTTGACTATCG
AGAGTATTCCTACTTTTCTTTGCTTTAATTTTTGACTGATCAGGATTTTG
AGATTCCAAATCATTATTTTCATTTTCATCATTATTCTTTTTGTTTTCTT
TAGAATTTACTCGACTGATGCTTTCAATTTTCTGATAATATTGAAAATAA
GAAAAAAATCC

Annotated Terms

The following terms have been associated with this transcript:

Vocabulary: **Planarian Anatomy**
Term	Definition
PLANA:0000014	zeta neoblast
PLANA:0002109	X1 cell

Vocabulary: **INTERPRO**
Term	Definition
IPR029314	FANCI_S4

Main menu

SMED30028317

Zeng et. al., 2018

▻ Overview

▻ Neoblast Population

▻ Sub-lethal Irradiated Surviving X1 and X2 Cell Population

Overview

Single cell RNA-seq of pluripotent neoblasts and its early progenies

Explore this single cell expression dataset with our NB Cluster Shiny App

Neoblast Population

Sub-lethal Irradiated Surviving X1 and X2 Cell Population

Davies et. al., 2017

PAGE et. al., 2020

has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGE

PAGE Curations: 3

Owlery

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