General information for g10393.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative GATA-binding factor A.
Parent gene
- The parent gene g10393 is located on chr_1: 9527313..9532824 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g10393 | g10393.t2 | TTS | g10393.t2 | 9520358 | 9520358 |
| chr_1 | g10393 | g10393.t2 | isoform | g10393.t2 | 9521169 | 9532824 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon1 | 9521169 | 9521488 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS1 | 9521169 | 9521488 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon2 | 9521548 | 9521760 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS2 | 9521548 | 9521760 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon3 | 9521823 | 9521898 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS3 | 9521823 | 9521898 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon4 | 9521961 | 9522125 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS4 | 9521961 | 9522125 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon5 | 9522333 | 9522424 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS5 | 9522333 | 9522424 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon6 | 9522622 | 9522873 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS6 | 9522622 | 9522873 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon7 | 9523820 | 9523967 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS7 | 9523820 | 9523967 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon8 | 9524327 | 9524552 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS8 | 9524327 | 9524552 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon9 | 9526822 | 9527806 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS9 | 9526822 | 9527806 |
| chr_1 | g10393 | g10393.t2 | exon | g10393.t2.exon10 | 9532803 | 9532824 |
| chr_1 | g10393 | g10393.t2 | cds | g10393.t2.CDS10 | 9532803 | 9532824 |
| chr_1 | g10393 | g10393.t2 | TSS | g10393.t2 | 9532968 | 9532968 |
Sequences
>g10393.t2 Gene=g10393 Length=2499
ATGTCTTCGACAAGAAATGACGATACATCATATGGCACAAATTCTTCAACAACTACGATC
GATCGCACAACATCAGTTGTTCTGAAGACGTCAAGTGATAAGGAGCGACTTGCAGATAGA
GACGAGCAAAAAAATAGCAATACTAACAATTTTGAAAGTGAAGAGACAAAAGTGACACGT
GAAATTCTTACACCATCGCCGGTAAATTTGAATGTCGATAATAAAAGTTGTTTAGAAATC
GATAGTGCTCTCTATACAAGTACATTACCATTAGTTGATAATTTTGTAAACAACACACAT
AGTGGTGGAAAATATTACGAATTCTCATCGACTGGAAATTGTTGGCCTTACGATCTTTCG
CGTACATCTAGCAACACACTCGATTATTCGCTTGTAACGCGTGGAAGTGATCAATTAGTG
ACAAACAGTGCAAATATTTATAGTGCAAATTTTCGTGGTCATCCATACGGCACAACATTC
TACAACACGACGACCGCCATGAAAGGTAATATGATGACATTATCGCAATTTGACGTTATG
TCGCCACCATCATCATCATCTTCCACCACCTCTGATTCATCGTCGTATTACGGACAAGAC
AATAACAATTCATCATCATTCATTAACATTAACGATTATGCAATTCATCATCAGTCGAGT
TATATTGATGATTTTTGTGAGATTTTAAAAGATGAAAATTATTTGTTAGTCGAAGATGCC
GGACATTATACAACCCTTACGAACGCTACAACATCGACTAGTGGCAGTGGACAATTTGAT
GCCTACTTTCAAGAACATATCCCGAGAAATTATGGTCATCAGCATTCAACATCGAGTGGT
GGTGATTCAAGAAGTCCTGATGGTTTCGCAGCCACTGATGACTACGATAATGGCATGCAA
AATTTTACTCAGCTAACGAGTCTAACTACACGAAATGGACTTTACACATCATCGCCAGTA
AACGTCACTGATAGCATGCTTTCCAACTATGATTCAACCGCAAATAGTTACGCGCGAACT
TTTTCGCCTGTTTCATCACAAGCAGCAACCATGTTGCCTTATCTTTCAAGTATCAGCCCC
ACAATCGAACAGCAAGTAATGTGGCCAGTGAATGGACACAATGATGATTTTATGGATACC
AATAACAGAATCGGCAAGCTTCCAGAATTTCAACGACTTACAAATTTTACAACGCAACCG
AAAAATACTCATTATACATCAAATTATAATCAGAATGATTGGTCATCATCATATTTGTCA
TCTACAATTTCAACATCAAATGGTCATGATACAAAATTGACAATTCCATCGCTTCCAGTT
GTAACACAGCGTGGTCGACCAGGAGTAACTCATTTATCCGCCTCACAATCACTATCAGCC
ATGCCGCAGACATTTATCTACGATGATTCGTGTGATATTGGTCGTGAATGTGTCAACTGC
GGTGCAATAAGTACACCATTATGGCGTCGTGATGGAACTGGTCACTATTTGTGCAATGCT
TGTGGACTTTATCATAAAATGAATGGCATGAATCGCCCTCTTGTTAAGCAGCCCAGAAGA
TTAGTAAGCAAAGTAGATTCAACAATTTTAATTTCATTTTTATTTTTTATTACATTTCTA
GGAAAGATAAAAATGGCTGGATCGAGTGAAATTTATAAAACGCCATTGCTCTATCCACCA
CCTGGTAATAGTGCACCACGCGAAGAAAAACAATCGCGACGTACGCCTGCTGCACGTCGT
ACAGGATTAAAATGTTCAAATTGCAATACCGTGAATACTTCACTATGGCGTAGAAATGCA
CAAGGTGAACCTGTTTGTAATGCATGTGGATTGTACTATAAACTACATAATGTCAATCGA
CCAATCACCATGAAAAAAGAACAAATTCAAACAAGAAAACGTAAACCAAAAGGCATGAAA
AATCCAGATGGAACTTCAAAAAAAGGAAAAATGAATGTTAGTTGTGATTACATGGTAAAT
GGCAAAATTTCAAATGCCCGTAAAACAAAAAACACCAAAGGACTGACAATAGAAACACCA
ATGCCAACAACTGAACAAAACCAAAGCAGCTCATCATCAGGCTCATCTTCAACGTCATCA
TCGTCATCAAATTCATCACCTAATTCACAAAATTCACCCCAAGTTGCATCACCACTTTCG
CATCATTCACCAATGACTTTACCAAGTTTAACACCACGTCCTGTAGTATCAGGAATGGGC
ACTTGTTCGAGTGTAATCACAACATCTCCAAATATGACGTCGTATCCGCCATTGACACCA
CTCCCACAACTCAACAGCCACTTGTACAATTCATCACTCTTGAGTCCGAATGCCGACAGC
AATCAATCATCTTTTCAATCAAACTTTGCTAACTTAAATCATCTCATAAAAACAGAAGAT
GGTGCACATATCGCACTAAATAACAATGATATTAATAGCAAGGCAATTGATTTGGAACTT
AAACATCGTCAGCTGCTGGCAAATATTGAATCTCGATAG
>g10393.t2 Gene=g10393 Length=832
MSSTRNDDTSYGTNSSTTTIDRTTSVVLKTSSDKERLADRDEQKNSNTNNFESEETKVTR
EILTPSPVNLNVDNKSCLEIDSALYTSTLPLVDNFVNNTHSGGKYYEFSSTGNCWPYDLS
RTSSNTLDYSLVTRGSDQLVTNSANIYSANFRGHPYGTTFYNTTTAMKGNMMTLSQFDVM
SPPSSSSSTTSDSSSYYGQDNNNSSSFININDYAIHHQSSYIDDFCEILKDENYLLVEDA
GHYTTLTNATTSTSGSGQFDAYFQEHIPRNYGHQHSTSSGGDSRSPDGFAATDDYDNGMQ
NFTQLTSLTTRNGLYTSSPVNVTDSMLSNYDSTANSYARTFSPVSSQAATMLPYLSSISP
TIEQQVMWPVNGHNDDFMDTNNRIGKLPEFQRLTNFTTQPKNTHYTSNYNQNDWSSSYLS
STISTSNGHDTKLTIPSLPVVTQRGRPGVTHLSASQSLSAMPQTFIYDDSCDIGRECVNC
GAISTPLWRRDGTGHYLCNACGLYHKMNGMNRPLVKQPRRLVSKVDSTILISFLFFITFL
GKIKMAGSSEIYKTPLLYPPPGNSAPREEKQSRRTPAARRTGLKCSNCNTVNTSLWRRNA
QGEPVCNACGLYYKLHNVNRPITMKKEQIQTRKRKPKGMKNPDGTSKKGKMNVSCDYMVN
GKISNARKTKNTKGLTIETPMPTTEQNQSSSSSGSSSTSSSSSNSSPNSQNSPQVASPLS
HHSPMTLPSLTPRPVVSGMGTCSSVITTSPNMTSYPPLTPLPQLNSHLYNSSLLSPNADS
NQSSFQSNFANLNHLIKTEDGAHIALNNNDINSKAIDLELKHRQLLANIESR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g10393.t2 | CDD | cd00202 | ZnF_GATA | 476 | 520 | 8.82564E-18 |
| 17 | g10393.t2 | CDD | cd00202 | ZnF_GATA | 584 | 635 | 4.54418E-21 |
| 12 | g10393.t2 | Gene3D | G3DSA:3.30.50.10 | - | 471 | 521 | 1.4E-25 |
| 11 | g10393.t2 | Gene3D | G3DSA:3.30.50.10 | - | 574 | 635 | 2.7E-29 |
| 24 | g10393.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - |
| 27 | g10393.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 57 | - |
| 25 | g10393.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 28 | 57 | - |
| 23 | g10393.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 623 | 721 | - |
| 26 | g10393.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 626 | 644 | - |
| 22 | g10393.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 664 | 721 | - |
| 4 | g10393.t2 | PANTHER | PTHR10071:SF154 | TRANSCRIPTION FACTOR GATA-4 | 401 | 522 | 1.1E-75 |
| 6 | g10393.t2 | PANTHER | PTHR10071 | TRANSCRIPTION FACTOR GATA FAMILY MEMBER | 401 | 522 | 1.1E-75 |
| 3 | g10393.t2 | PANTHER | PTHR10071:SF154 | TRANSCRIPTION FACTOR GATA-4 | 570 | 736 | 1.1E-75 |
| 5 | g10393.t2 | PANTHER | PTHR10071 | TRANSCRIPTION FACTOR GATA FAMILY MEMBER | 570 | 736 | 1.1E-75 |
| 8 | g10393.t2 | PRINTS | PR00619 | Transcription factor GATA zinc finger signature | 473 | 490 | 3.4E-14 |
| 7 | g10393.t2 | PRINTS | PR00619 | Transcription factor GATA zinc finger signature | 491 | 508 | 3.4E-14 |
| 2 | g10393.t2 | Pfam | PF00320 | GATA zinc finger | 477 | 509 | 7.1E-14 |
| 1 | g10393.t2 | Pfam | PF00320 | GATA zinc finger | 585 | 618 | 3.6E-14 |
| 14 | g10393.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 520 | - |
| 15 | g10393.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 521 | 541 | - |
| 13 | g10393.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 542 | 832 | - |
| 20 | g10393.t2 | ProSitePatterns | PS00344 | GATA-type zinc finger domain. | 477 | 501 | - |
| 21 | g10393.t2 | ProSitePatterns | PS00344 | GATA-type zinc finger domain. | 585 | 609 | - |
| 29 | g10393.t2 | ProSiteProfiles | PS50114 | GATA-type zinc finger domain profile. | 471 | 524 | 26.548 |
| 28 | g10393.t2 | ProSiteProfiles | PS50114 | GATA-type zinc finger domain profile. | 579 | 632 | 27.866 |
| 18 | g10393.t2 | SMART | SM00401 | GATA_3 | 471 | 521 | 5.8E-16 |
| 19 | g10393.t2 | SMART | SM00401 | GATA_3 | 579 | 629 | 2.0E-21 |
| 9 | g10393.t2 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 471 | 517 | 4.75E-15 |
| 10 | g10393.t2 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 578 | 636 | 1.62E-17 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0006357 | regulation of transcription by RNA polymerase II | BP |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0043565 | sequence-specific DNA binding | MF |
| GO:0008270 | zinc ion binding | MF |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K09184 (GATA-binding protein, other eukaryote)
Pathway
This gene does not belong to any pathways.
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
