general transcription factor IIF 1

Overview
Namegeneral transcription factor IIF 1 (AKG62105.1)
Smed IDSMED30028677
Length (bp)1521
Neoblast Clusters

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


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 general transcription factor IIF 1 (SMED30028677) t-SNE clustered cells

Violin plots show distribution of expression levels for general transcription factor IIF 1 (SMED30028677) in cells (dots) of each of the 12 neoblast clusters.

 

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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 general transcription factor IIF 1 (SMED30028677) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for general transcription factor IIF 1 (SMED30028677) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

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Embryonic Expression

Davies et. al., 2017

Hover the mouse over a column in the graph to view average RPKM values per sample.
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset

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

 

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Anatomical Expression

PAGE et. al., 2020



SMED30028677

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



PAGE Curations: 6

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30028677SMESG000056086.1 SmedASXL_005932SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
X2 cellSMED30028677SMESG000056086.1 SmedASXL_005932SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
nervous systemSMED30028677SMESG000056086.1 dd_Smed_v4_7287_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30028677SMESG000056086.1 dd_Smed_v4_7287_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30028677SMESG000056086.1 Contig48979newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30028677SMESG000056086.1 Contig48979uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of general transcription factor IIF 1 vs. TrEMBL
Match: A0A0F7GWW6 (General transcription factor IIF 1 (Fragment) OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 487.263 bits (1253), Expect = 3.863e-168
Identity = 309/310 (99.68%), Postives = 310/310 (100.00%), Query Frame = 1 
Query:  409 QKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWYKINPFTKLDINSIEESERDQLRKGQIFDSSSXXXXXXXXXXXXXXXXNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEENPXXXXXXXXXXXXXXXXXXXXTQIIEXXXXXXXXXXXXXXXXXXXXXXAPKMLSKSDYNNNLVSAALKRPLSDSSSAQNDSKRAKFSNPKLNEILQELRKHLTRKPIYVKDLFKILMKKSLLENNDESKKLF 1338
            +KKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWYKINPFTKLDINSIEESERDQLRKGQIFDSSSKKFTEKYKVEEKEVHKNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEENPEKLSDQSDDEEEKKDDKVEETQIIEDDDDDDDDDDNDNSDYTESEDDAPKMLSKSDYNNNLVSAALKRPLSDSSSAQNDSKRAKFSNPKLNEILQELRKHLTRKPIYVKDLFKILMKKSLLENNDESKKLF
Sbjct:    5 KKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWYKINPFTKLDINSIEESERDQLRKGQIFDSSSKKFTEKYKVEEKEVHKNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEENPEKLSDQSDDEEEKKDDKVEETQIIEDDDDDDDDDDNDNSDYTESEDDAPKMLSKSDYNNNLVSAALKRPLSDSSSAQNDSKRAKFSNPKLNEILQELRKHLTRKPIYVKDLFKILMKKSLLENNDESKKLF 314
[Close]
BLAST of general transcription factor IIF 1 vs. TrEMBL
Match: A0A5S6QXS8 (Uncharacterized protein OS=Trichuris muris OX=70415 PE=4 SV=1)

HSP 1 Score: 72.4034 bits (176), Expect = 7.918e-10
Identity = 61/237 (25.74%), Postives = 114/237 (48.10%), Query Frame = 1 
Query:  304 PEFGMGSSFKRQQKHTRVEA---------------DVPTTYTITIDKANAQKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWY---KINPFTKLDINSIEESERDQLRKGQIFDSSSXXXXXXXXXXXXXXXXNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAH----------AGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADL 930
            P+FG GS +    KH R+EA               D P  + +T++  +A+K        ++ ++ Y +F++  E++F+AYP+  WY    ++ F  LDI+  EE  R+   +G++ +  +     K ++       N+ E   E +E  D   + ++   K     + ++K+H +   H          + ESD  D +G E+DYMSD+  D   +S+ EK++  + + VD+EA +
Sbjct:   62 PKFGAGSEYG---KHARLEARKKKLGYRSQQYRRSDQP--WLLTVNDKHARKYRGIREGGVSEHADYWIFVKSGENVFDAYPVSEWYNFMAVSRFKALDIDEAEEKFRE---RGKVLNQFA----LKTQLRNSNNETNEEELAGESREQQDENAESRKAARKGHARKLKEQKKHAKIKRHKDANEEDLIASAESDDGDEEGREIDYMSDTDSD---ISEPEKKEAQQLIGVDEEAGM 283
[Close]
BLAST of general transcription factor IIF 1 vs. TrEMBL
Match: A0A085LS97 (Transcription initiation factor IIF subunit alpha OS=Trichuris suis OX=68888 GN=D918_09813 PE=3 SV=1)

HSP 1 Score: 68.1662 bits (165), Expect = 2.230e-8
Identity = 64/235 (27.23%), Postives = 111/235 (47.23%), Query Frame = 1 
Query:  304 PEFGMGSSFKRQQKHTRVEAD-------------VPTTYTITIDKANAQKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWY---KINPFTKLDINSIEESERDQLRKGQIFDSSSXXXXXXXXXXXXXXXXNDIEFGNED-KELSDSEIQEKQILN---KRKKDTVFQRKRHGQGDAH------AGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADL 930
            P+FG GS +    KH R+EA                  + +T+   + +K        ++ ++ Y +F++  E++F+AYP+  WY    I+ F  LDI+  EE  ++   +G++ +  +     K ++       N+ E   E  KE S+ E   K  +    K++K+   Q K     DA+      + ESD  D +G E+DYMSD+  D DV  + EK++  E + VD+E  +
Sbjct:   61 PKFGAGSEY---GKHARLEARKKKLGYRSQQYRRSEQPWLLTVSDKHTRKYRGIREGGVSEHADYWIFVKSGENIFDAYPVSEWYNFMAISRFKALDIDQAEEKFKE---RGKVLNQFA----LKTQLRTATSEANEEELAGESTKESSEKEQSRKNAVKAQAKKRKELKKQAKARRHKDANEEDLIASAESDDGDEEGREIDYMSDT--DTDVSDEPEKKEAEELIGVDEEIGM 283
[Close]
BLAST of general transcription factor IIF 1 vs. TrEMBL
Match: A0A1S8WSD0 (Transcription initiation factor IIF subunit alpha (Fragment) OS=Opisthorchis viverrini OX=6198 GN=X801_06770 PE=3 SV=1)

HSP 1 Score: 60.4622 bits (145), Expect = 8.587e-6
Identity = 29/45 (64.44%), Postives = 36/45 (80.00%), Query Frame = 1 
Query:  796 ESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADL 930
            +S+VDDH+GDEVDYM++SS DED LS  E+EK+YE   VD EA L
Sbjct:  491 DSEVDDHEGDEVDYMTNSSSDEDKLSADEREKIYEEPGVDDEAAL 535
[Close]
BLAST of general transcription factor IIF 1 vs. TrEMBL
Match: A0A4S2L7Z4 (Uncharacterized protein OS=Opisthorchis felineus OX=147828 GN=CRM22_009140 PE=4 SV=1)

HSP 1 Score: 60.077 bits (144), Expect = 9.024e-6
Identity = 29/45 (64.44%), Postives = 36/45 (80.00%), Query Frame = 1 
Query:  796 ESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADL 930
            +S+VDDH+GDEVDYM++SS DED LS  E+EK+YE   VD EA L
Sbjct:  504 DSEVDDHEGDEVDYMTNSSSDEDKLSADEREKIYEEPGVDDEAAL 548
[Close]
BLAST of general transcription factor IIF 1 vs. Planmine SMEST
Match: SMESG000056086.1 (SMESG000056086.1)

HSP 1 Score: 791.956 bits (2044), Expect = 0.000e+0
Identity = 454/454 (100.00%), Postives = 454/454 (100.00%), Query Frame = 1 
Query:   43 MNNNFNRSTIKITNSNVNVNNLIKVVPNNEYTKDHAKQLFVKFTKPTDRQLDILQFMDDSTSNYSFSEKPMFLQQIINKRGPRNNGEPEFGMGSSFKRQQKHTRVEADVPTTYTITIDKANAQKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWYKINPFTKLDINSIEESERDQLRKGQIFDSSSXXXXXXXXXXXXXXXXNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEENPXXXXXXXXXXXXXXXXXXXXTQIIEXXXXXXXXXXXXXXXXXXXXXXAPKMLSKSDYNNNLVSAALKRPLSDSSSAQNDSKRAKFSNPKLNEILQELRKHLTRKPIYVKDLFKILMKKSLLENNDESKKLFYHCLDQLKAVAKDIQGKKYFNL 1404
            MNNNFNRSTIKITNSNVNVNNLIKVVPNNEYTKDHAKQLFVKFTKPTDRQLDILQFMDDSTSNYSFSEKPMFLQQIINKRGPRNNGEPEFGMGSSFKRQQKHTRVEADVPTTYTITIDKANAQKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWYKINPFTKLDINSIEESERDQLRKGQIFDSSSKKFTEKYKVEEKEVHKNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEENPEKLSDQSDDEEEKKDDKVEETQIIEDDDDDDDDDDNDNSDYTESEDDAPKMLSKSDYNNNLVSAALKRPLSDSSSAQNDSKRAKFSNPKLNEILQELRKHLTRKPIYVKDLFKILMKKSLLENNDESKKLFYHCLDQLKAVAKDIQGKKYFNL
Sbjct:    1 MNNNFNRSTIKITNSNVNVNNLIKVVPNNEYTKDHAKQLFVKFTKPTDRQLDILQFMDDSTSNYSFSEKPMFLQQIINKRGPRNNGEPEFGMGSSFKRQQKHTRVEADVPTTYTITIDKANAQKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWYKINPFTKLDINSIEESERDQLRKGQIFDSSSKKFTEKYKVEEKEVHKNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEENPEKLSDQSDDEEEKKDDKVEETQIIEDDDDDDDDDDNDNSDYTESEDDAPKMLSKSDYNNNLVSAALKRPLSDSSSAQNDSKRAKFSNPKLNEILQELRKHLTRKPIYVKDLFKILMKKSLLENNDESKKLFYHCLDQLKAVAKDIQGKKYFNL 454
[Close]
BLAST of general transcription factor IIF 1 vs. Planmine SMEST
Match: SMESG000055295.1 (SMESG000055295.1)

HSP 1 Score: 282.337 bits (721), Expect = 7.367e-91
Identity = 140/271 (51.66%), Postives = 195/271 (71.96%), Query Frame = 1 
Query:  130 EYTKDHAKQLFVKFTKPTDRQLDILQFMDDSTSNYSFSEKPMFLQQIINKRGPRNNGEPEFGMGSSFKRQQKHTRVEADVPTTYTITIDKANAQKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWYKINPFTKLDINSIEESERDQLRKGQIFDSSSXXXXXXXXXXXXXXXXNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEEN 942
            E+++D++KQ+FVKF K  D +LDILQFM+DSTSN+ FS+ PMF+QQI+N++    + +PEFG+GSS+ +++    +    P  + +TIDK   Q+KFKT PQ+MN   +YL+F+RKSESLFEA P+ENWYK+N FTKLD  SIEE ER+Q++   I ++++          + E  +N  E GN+++E SDSE  EK+ +   KK  VF R R+G+G+ +  ESDVDDHQGDEVDYMSDSSCDE++LS+ E+EK+YEA  VDQE  L + N
Sbjct:   18 EFSRDYSKQMFVKFRKRVDEKLDILQFMEDSTSNFRFSKTPMFMQQIVNRKPTNIHNKPEFGLGSSYMKEKHCKEIGNKSPAGHLLTIDKGQTQRKFKTFPQQMNTTCKYLLFVRKSESLFEAQPIENWYKMNKFTKLDFESIEEIEREQMK---IEETANNLSARFLNKYDTEGKENKTETGNKNEEFSDSETIEKEDIRNLKKIAVFNRARYGKGNNYECESDVDDHQGDEVDYMSDSSCDEEILSNDEREKIYEAGHVDQEPVLKDRN 285
[Close]
BLAST of general transcription factor IIF 1 vs. Planmine SMEST
Match: SMESG000055485.1 (SMESG000055485.1)

HSP 1 Score: 270.011 bits (689), Expect = 1.798e-86
Identity = 136/262 (51.91%), Postives = 186/262 (70.99%), Query Frame = 1 
Query:  157 LFVKFTKPTDRQLDILQFMDDSTSNYSFSEKPMFLQQIINKRGPRNNGEPEFGMGSSFKRQQKHTRVEADVPTTYTITIDKANAQKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWYKINPFTKLDINSIEESERDQLRKGQIFDSSSXXXXXXXXXXXXXXXXNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEEN 942
            +FVKF K  D +LDILQFM+DSTSN+ FS+ PMF+QQI+N++    + +PEFG+GSS+ +++    +    P  + +TIDK   Q+KFKT PQ+MN   +YL+F+RKSESLFEA P+ENWYK+N FTKLD  SIEE ER+Q++   I ++++          + E  +N  E GN+++E SDSE  EK+ +   KK  VF R R+G+G+ +  ESDVDDHQGDEVDYMSDSSCDE++LS+ E+EK+YEA  VDQE  L + N
Sbjct:    1 MFVKFRKRVDEKLDILQFMEDSTSNFRFSKTPMFMQQIVNRKPTNIHNKPEFGLGSSYMKEKHCKEIGNKTPAGHLLTIDKGPTQRKFKTFPQQMNTTCKYLLFVRKSESLFEAQPIENWYKMNKFTKLDFESIEEIEREQMK---IEETANNLSARFLNKYDTEGKENKTETGNKNEEFSDSETIEKEDIRNLKKIAVFNRARYGKGNNYECESDVDDHQGDEVDYMSDSSCDEEILSNDEREKIYEAGHVDQEPVLKDRN 259
[Close]
BLAST of general transcription factor IIF 1 vs. Planmine SMEST
Match: SMESG000056085.1 (SMESG000056085.1)

HSP 1 Score: 116.701 bits (291), Expect = 1.133e-27
Identity = 97/297 (32.66%), Postives = 161/297 (54.21%), Query Frame = 1 
Query:  130 EYTKDHAKQLFVKF-TKPTDRQLDILQFMDDSTSNYSFSEKPMFLQQIINKRGPRNNGEPEFGMGSSFKRQQK-----------HTRVEADVPTTYTITIDKANAQKKFKTAPQEMNPNSQYLVFIRKSESLFEAYPLENWYKINP-----FTKLDINSIEE-------SERDQLRKGQIFDSSSXXXXXXXXXXXXXXXXNDIEFG------NEDKEL-SDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEAD 927
            E+ K ++K++F+KF +   ++++DILQF +D +   + + K MFLQ+   ++   + G P FG G+ F ++ +             + E+  P    ++I +    KK+K   + M  NSQY VFIR S   FEA  +++WYK+ P     F KL+ +SIEE       +E   +   + + +   +  +  KV+     ++D+  G      N D+++ SD+   E++ + K+KK+     K     + +  ESDVDDHQGDEVDYM+ SS DED L + EKEK+Y   +VD+EA+
Sbjct:   59 EFFKKYSKEIFIKFRSSECEKRIDILQFNNDGSLEQNLNSKEMFLQRDRTQKIKTSQG-PIFGAGTEFCKEARDEAWQRKFALYKKKSESKDPIN--LSIGRGRNVKKYKAVKESMFENSQYCVFIRSSNDCFEAVSVKDWYKMQPEVISRFPKLE-DSIEEYNKVAKKTESTSIIFSKRYLTEVDEVVKAKKVKRNSDEESDVYHGPGLIITNNDQDIFSDTTDDEEKEVMKKKKNAALLSKIRLGKERYYEESDVDDHQGDEVDYMTHSSSDEDNLPEMEKEKIYTVNNVDEEAN 351
[Close]
BLAST of general transcription factor IIF 1 vs. Planmine SMEST
Match: SMESG000055520.1 (SMESG000055520.1)

HSP 1 Score: 105.145 bits (261), Expect = 7.202e-26
Identity = 55/94 (58.51%), Postives = 70/94 (74.47%), Query Frame = 1 
Query:  661 NDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHAGESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEEN 942
            N  E GN+++E SDSE  EK+ +   KK  VF R R+G+G+ +  ESDVDDHQGDEVDYMSDSSCDE++LS+ E+EK+YEA  VDQE  L + N
Sbjct:   34 NKTETGNKNEEFSDSETIEKEDIRNLKKIAVFNRARYGKGNNYECESDVDDHQGDEVDYMSDSSCDEEILSNDEREKIYEAGHVDQEPVLKDRN 127
The following BLAST results are available for this feature:
BLAST of general transcription factor IIF 1 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A0F7GWW63.863e-16899.68General transcription factor IIF 1 (Fragment) OS=S... [more]
A0A5S6QXS87.918e-1025.74Uncharacterized protein OS=Trichuris muris OX=7041... [more]
A0A085LS972.230e-827.23Transcription initiation factor IIF subunit alpha ... [more]
A0A1S8WSD08.587e-664.44Transcription initiation factor IIF subunit alpha ... [more]
A0A4S2L7Z49.024e-664.44Uncharacterized protein OS=Opisthorchis felineus O... [more]
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BLAST of general transcription factor IIF 1 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of general transcription factor IIF 1 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000056086.10.000e+0100.00SMESG000056086.1[more]
SMESG000055295.17.367e-9151.66SMESG000055295.1[more]
SMESG000055485.11.798e-8651.91SMESG000055485.1[more]
SMESG000056085.11.133e-2732.66SMESG000056085.1[more]
SMESG000055520.17.202e-2658.51SMESG000055520.1[more]
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Cross References
External references for this transcript
DatabaseAccession
SmedGD GBrowseSMED30028677
GenBankAKG62105.1
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30028677 ID=SMED30028677|Name=general transcription factor IIF 1|organism=Schmidtea mediterranea sexual|type=transcript|length=1521bp
TTTAAATAATCTGAGCAAAGCATAAAATTTTAAATCTTATTCATGAATAA
TAATTTTAATCGTAGTACAATTAAAATTACAAACTCTAATGTCAATGTAA
ATAATTTAATTAAAGTTGTTCCAAACAATGAATATACAAAGGATCACGCT
AAGCAGTTATTTGTTAAATTTACGAAACCTACTGATCGCCAATTGGATAT
TTTACAATTTATGGACGATTCTACTTCGAACTATAGTTTTAGTGAAAAGC
CTATGTTTCTTCAACAGATAATCAACAAAAGAGGTCCAAGAAATAATGGT
GAACCTGAATTTGGTATGGGAAGTTCATTTAAGAGACAGCAAAAGCACAC
AAGAGTTGAAGCAGATGTTCCAACTACATATACAATTACCATTGATAAAG
CCAACGCTCAAAAAAAATTTAAAACTGCTCCACAAGAAATGAATCCCAAT
TCTCAGTATTTGGTATTTATTCGAAAGTCAGAATCTCTATTTGAAGCTTA
TCCTTTAGAAAATTGGTATAAAATTAATCCTTTTACAAAACTCGATATTA
ATAGTATTGAAGAATCTGAACGAGATCAACTTAGAAAAGGTCAAATTTTT
GATAGCTCTTCGAAAAAATTTACAGAGAAATATAAAGTTGAAGAAAAAGA
AGTCCATAAAAATGATATCGAATTCGGTAATGAAGATAAAGAATTATCGG
ATTCAGAAATTCAAGAAAAGCAAATATTAAATAAGCGAAAAAAGGATACA
GTTTTTCAACGTAAGCGACATGGTCAAGGGGATGCTCACGCTGGTGAGAG
TGATGTTGACGACCATCAAGGAGATGAAGTAGATTACATGAGTGATTCGT
CATGTGATGAAGATGTCTTATCTGATGGAGAAAAAGAAAAATTATATGAA
GCAGTAGACGTTGATCAAGAAGCTGATTTACTTGAAGAAAACCCTGAAAA
GTTATCTGATCAATCTGATGATGAAGAGGAAAAAAAGGACGACAAAGTTG
AAGAAACTCAAATCATTGAGGATGATGACGATGACGACGACGATGATGAC
AATGATAATAGTGATTATACAGAATCTGAAGATGATGCACCGAAAATGCT
CAGTAAAAGCGATTACAACAATAATTTAGTCAGTGCCGCATTAAAACGGC
CTCTCTCTGACAGTTCCAGTGCTCAAAACGATAGCAAAAGAGCCAAATTT
TCTAATCCCAAATTAAATGAAATCCTCCAAGAATTACGAAAGCACTTAAC
AAGGAAACCAATTTATGTTAAAGATCTATTTAAAATTTTAATGAAGAAAA
GTTTACTCGAAAATAACGATGAATCGAAAAAACTGTTTTATCATTGCCTG
GACCAACTGAAGGCAGTTGCTAAGGATATTCAAGGCAAAAAATATTTTAA
TTTATGAAATTTTTGTATGTGTTTATAAATACAATTTGATATTTATTTTG
GAATTTATTTAATAAATTAATTGGTTTGTAATTTGGTATAAATATATGTT
TATGATTTCGTTTAAAAAAAA
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protein sequence of SMED30028677-orf-1

>SMED30028677-orf-1 ID=SMED30028677-orf-1|Name=SMED30028677-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=455bp
MNNNFNRSTIKITNSNVNVNNLIKVVPNNEYTKDHAKQLFVKFTKPTDRQ
LDILQFMDDSTSNYSFSEKPMFLQQIINKRGPRNNGEPEFGMGSSFKRQQ
KHTRVEADVPTTYTITIDKANAQKKFKTAPQEMNPNSQYLVFIRKSESLF
EAYPLENWYKINPFTKLDINSIEESERDQLRKGQIFDSSSKKFTEKYKVE
EKEVHKNDIEFGNEDKELSDSEIQEKQILNKRKKDTVFQRKRHGQGDAHA
GESDVDDHQGDEVDYMSDSSCDEDVLSDGEKEKLYEAVDVDQEADLLEEN
PEKLSDQSDDEEEKKDDKVEETQIIEDDDDDDDDDDNDNSDYTESEDDAP
KMLSKSDYNNNLVSAALKRPLSDSSSAQNDSKRAKFSNPKLNEILQELRK
HLTRKPIYVKDLFKILMKKSLLENNDESKKLFYHCLDQLKAVAKDIQGKK
YFNL*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000429neoblast
PLANA:0002109X1 cell
PLANA:0002111X2 cell
Vocabulary: INTERPRO
TermDefinition
IPR011991WHTH_DNA-bd_dom
IPR011039TFIIF_interaction
Vocabulary: biological process
TermDefinition
GO:0006367transcription initiation from RNA polymerase II promoter
Vocabulary: molecular function
TermDefinition
GO:0003824catalytic activity
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 274..290
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 297..321
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 234..265
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 322..343
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 354..385
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 234..385
IPR011039Transcription Factor IIF, Rap30/Rap74, interactionSUPERFAMILYSSF50916Rap30/74 interaction domainscoord: 37..178