PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | GSBRNA2T00156948001 | ||||||||
Common Name | GSBRNA2T00156948001 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
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Family | HD-ZIP | ||||||||
Protein Properties | Length: 696aa MW: 77038.2 Da PI: 6.3364 | ||||||||
Description | HD-ZIP family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | Homeobox | 61.6 | 1.2e-19 | 63 | 118 | 1 | 56 |
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 +++ +++t+ q++eLe++F+++++p+ ++r+eL+++l+L+ qVk+WFqN+R+++k GSBRNA2T00156948001 63 KKRYHRHTQRQIQELESFFKECPHPDDKQRKELSRELNLEPLQVKFWFQNKRTQMK 118 688999***********************************************998 PP | |||||||
2 | START | 216 | 1.3e-67 | 216 | 435 | 1 | 206 |
HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....E CS START 1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....k 78 ela +a++elv++a+ ++p+Wv+s e++n++e+ ++f+++ + ++ea+r+s+vv+m++ +lve+l+d++ qW+ + + GSBRNA2T00156948001 216 ELAVAAMEELVRMAQTGDPLWVSSDsavEILNEEEYFRTFPRGIGpkplgLRSEASRESTVVIMNHINLVEILMDVN-QWSSVFCgivsR 304 57899*******************999***************999********************************.******99999* PP EEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCE CS START 79 aetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksngh 161 a tlev+s+g galq+m+ae+q++splvp R+ +fvRy++++++ +w++vdvS+ds ++ p + R +++pSg+li++++ng+ GSBRNA2T00156948001 305 ALTLEVLSTGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKKHSDNTWAVVDVSLDSLRPSP----ITRNRRRPSGCLIQELQNGY 390 ****************************************************************99....6******************* PP EEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 162 skvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206 skvtwveh+++++r++h ++++lv++gla+gak+wvatl+rqce+ GSBRNA2T00156948001 391 SKVTWVEHTEVDDRSVHTMYKPLVNTGLAFGAKRWVATLDRQCER 435 *******************************************97 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:1.10.10.60 | 1.7E-22 | 44 | 118 | IPR009057 | Homeodomain-like |
SuperFamily | SSF46689 | 5.13E-19 | 52 | 120 | IPR009057 | Homeodomain-like |
PROSITE profile | PS50071 | 17.151 | 60 | 120 | IPR001356 | Homeobox domain |
SMART | SM00389 | 3.9E-18 | 61 | 124 | IPR001356 | Homeobox domain |
Pfam | PF00046 | 2.9E-17 | 63 | 118 | IPR001356 | Homeobox domain |
CDD | cd00086 | 4.92E-19 | 63 | 121 | No hit | No description |
PROSITE pattern | PS00027 | 0 | 95 | 118 | IPR017970 | Homeobox, conserved site |
PROSITE profile | PS50848 | 45.088 | 207 | 438 | IPR002913 | START domain |
SuperFamily | SSF55961 | 5.36E-35 | 208 | 437 | No hit | No description |
CDD | cd08875 | 1.77E-123 | 211 | 434 | No hit | No description |
SMART | SM00234 | 4.8E-78 | 216 | 435 | IPR002913 | START domain |
Pfam | PF01852 | 1.1E-56 | 217 | 435 | IPR002913 | START domain |
Gene3D | G3DSA:3.30.530.20 | 1.3E-5 | 315 | 434 | IPR023393 | START-like domain |
SuperFamily | SSF55961 | 3.02E-24 | 455 | 687 | No hit | No description |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0008289 | Molecular Function | lipid binding | ||||
GO:0043565 | Molecular Function | sequence-specific DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 696 aa Download sequence Send to blast |
MYQPNIFESH HHMFDMTPKN SDNDLGLTGS REDDFETKSG AEVTMENPLE EELQDPNQRP 60 NKKKRYHRHT QRQIQELESF FKECPHPDDK QRKELSRELN LEPLQVKFWF QNKRTQMKAQ 120 HERHENSILK SDNDKLRAEN NRIENARLRE EIDRISAIAA KYVGKPLLTH SSSSFPQLTS 180 SHHIPQTGFL GDMYGTSDIM RSVSIHNDAD KPMIVELAVA AMEELVRMAQ TGDPLWVSSD 240 SAVEILNEEE YFRTFPRGIG PKPLGLRSEA SRESTVVIMN HINLVEILMD VNQWSSVFCG 300 IVSRALTLEV LSTGVAGNYN GALQVMTAEF QVPSPLVPTR ENYFVRYCKK HSDNTWAVVD 360 VSLDSLRPSP ITRNRRRPSG CLIQELQNGY SKVTWVEHTE VDDRSVHTMY KPLVNTGLAF 420 GAKRWVATLD RQCERLASSM ASNIPAGDLS VITSPEGRKS MLKLAERMVM SFCSGVGASN 480 AHAWTTLATA GSDDVRVMTR KSMDDPGRPP GIVLSAATSF WIPVAPKRVF DFLRDENSRS 540 EWDILSNGGL VQEMAHIANG RDPGNSVSLF RVNSANSGQS NMLILQESCT DASGSYVIYA 600 PVDIMAMNVV LSGGDPDYVA LLPSGFAILP DGSSRVNAMV TSTASNCGSL LTVAFQILVD 660 SVPTAKLSLG SVATVNSLIK CTVERIKAAL ACDGA* |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Bna.12573 | 2e-93 | leaf |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: First expressed in the apical cell after the first asymmetric division of the zygote. Expressed in all proembryo cells until the eight-cell stage, and then restricted to the protoderm in the 16-cell proembryo. Not detected in the torpedo stage, but reappeared later in the L1 layer of the shoot apical meristem in the mature embryo. After germination, the L1 layer-specific expression pattern is maintained in the vegetative shoot apical meristem, inflorescence, floral meristems, and the young floral organ primordia. Finally, expressed in the protoderm of the ovule primordia and integuments and gradually restricted to the endothelium surrounding the embryo sac. {ECO:0000269|PubMed:10571886, ECO:0000269|PubMed:8989876}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Probable transcription factor involved in cell specification and pattern formation during embryogenesis. Binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to PDF2. {ECO:0000269|PubMed:11439135, ECO:0000269|PubMed:12505995}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | GSBRNA2T00156948001 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AK229970 | 0.0 | AK229970.1 Arabidopsis thaliana mRNA for L1 specific homeobox gene ATML1/ovule-specific homeobox protein A20, complete cds, clone: RAFL22-43-B20. | |||
GenBank | AY091104 | 0.0 | AY091104.1 Arabidopsis thaliana putative L1-specific homeobox gene ATML1/ovule-specific homeobox protein A20 (At4g21750) mRNA, complete cds. | |||
GenBank | AY150491 | 0.0 | AY150491.1 Arabidopsis thaliana putative L1-specific homeobox gene ATML1/ovule-specific homeobox protein A20 (At4g21750) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_013598423.1 | 0.0 | PREDICTED: homeobox-leucine zipper protein MERISTEM L1 | ||||
Refseq | XP_013598424.1 | 0.0 | PREDICTED: homeobox-leucine zipper protein MERISTEM L1 | ||||
Refseq | XP_013598425.1 | 0.0 | PREDICTED: homeobox-leucine zipper protein MERISTEM L1 | ||||
Swissprot | Q8RWU4 | 0.0 | ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1 | ||||
TrEMBL | M4FCD8 | 0.0 | M4FCD8_BRARP; Uncharacterized protein | ||||
STRING | Bra038757.1-P | 0.0 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM491 | 28 | 149 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT4G21750.2 | 0.0 | HD-ZIP family protein |