General information for g2900.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Transforming protein p54/c-ets-1.
Parent gene
- The parent gene g2900 is located on chr_3: 20993662..20998701 (- 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_3 | g2900 | g2900.t1 | TTS | g2900.t1 | 20975745 | 20975745 |
| chr_3 | g2900 | g2900.t1 | isoform | g2900.t1 | 20976733 | 20998701 |
| chr_3 | g2900 | g2900.t1 | exon | g2900.t1.exon1 | 20976733 | 20976796 |
| chr_3 | g2900 | g2900.t1 | cds | g2900.t1.CDS1 | 20976733 | 20976796 |
| chr_3 | g2900 | g2900.t1 | exon | g2900.t1.exon2 | 20976857 | 20977014 |
| chr_3 | g2900 | g2900.t1 | cds | g2900.t1.CDS2 | 20976857 | 20977014 |
| chr_3 | g2900 | g2900.t1 | exon | g2900.t1.exon3 | 20977078 | 20977782 |
| chr_3 | g2900 | g2900.t1 | cds | g2900.t1.CDS3 | 20977078 | 20977782 |
| chr_3 | g2900 | g2900.t1 | exon | g2900.t1.exon4 | 20977838 | 20978067 |
| chr_3 | g2900 | g2900.t1 | cds | g2900.t1.CDS4 | 20977838 | 20978067 |
| chr_3 | g2900 | g2900.t1 | exon | g2900.t1.exon5 | 20993715 | 20993954 |
| chr_3 | g2900 | g2900.t1 | cds | g2900.t1.CDS5 | 20993715 | 20993954 |
| chr_3 | g2900 | g2900.t1 | exon | g2900.t1.exon6 | 20994646 | 20994849 |
| chr_3 | g2900 | g2900.t1 | cds | g2900.t1.CDS6 | 20994646 | 20994849 |
| chr_3 | g2900 | g2900.t1 | exon | g2900.t1.exon7 | 20995965 | 20996078 |
| chr_3 | g2900 | g2900.t1 | cds | g2900.t1.CDS7 | 20995965 | 20996078 |
| chr_3 | g2900 | g2900.t1 | exon | g2900.t1.exon8 | 20998449 | 20998701 |
| chr_3 | g2900 | g2900.t1 | cds | g2900.t1.CDS8 | 20998449 | 20998701 |
| chr_3 | g2900 | g2900.t1 | TSS | g2900.t1 | NA | NA |
Sequences
>g2900.t1 Gene=g2900 Length=1968
ATGACAAACGAATGGATAGATTATGCCGAAAATGTGCACATAAGGACAACACCATTCAAA
TATCCATCGAATAATAATAGCTTGCTTACGAACAATAACAGTTTTCTCACAAACGGCAAT
ATGCATCACCAACCGCCACAACAGTTTTATAATAAAATGGGAATAAAACCATTTAATAAT
AATTTAAATAACAACAACAACAGTAGCACACTGAATCAATATAATTTAATGAATAAATTT
CAAAAGCCACGAGATCAACCGCAGATGCCACCCCTGACGCCTGGAACAGATAAGAAGCTG
GCTGAGGCGCTGCATGCATCGTTTGCGTCTTGGGAAAAAGAAGTACAATTATTTAAAATT
ACCAAAGATCCCCGTCTGTGGACTCCACAGCATGTTCAAATTTGGCTTAACTGGGTAAAG
AAGGAGTTTTCTTTAGAAATCAATTCAGCTGAGGCATTCTTTAAAATGCATGGACGTGAT
ATTGTGGGATTAGGTCGTGAAGGTTTTTTGGCTGTAGCACCTGTATATACTGGCGACATC
CTTTGGGAACACTTAGAAATTTTATTAAAAGATTGTGAAAAATCATCGTCTAGTGACCAG
CAAAATCTCTATGAGAACGTATGCGTAAGCAATTCAAGCACAAATACAACGACATCATCA
ACGGACTTAAGTGATTTCATTAGCAATAGTAGCACAACGACTAGTGGCAATACAACAGTA
ACAAATACGAATTCATCGTCAAATAACAATAGTAACAACAATAGCAATCAATTAAATGGA
CAAGATAGCTTTTCTACATCGACTGCTGGTGGTTACACAACATTACATGATCGAAGCGAA
AACAACAACACACCACCATCATCGACAGCAGCATCAACACAAATGTCCTACTTGAATATG
AATAATTCACTCAGGAATGGAAGCAATAATAGTGGGACTACTGGCAATCAATCTAATAGC
ATTTATCCAATGCTCAAAGAAGAAAATAGTAGCAGCAGTGGAAATAATTCTTCTAATTAT
CCTAGCTTAAGTGAATTATCGAATTATGGCATTACACATCATCCATCTTCATATGATGAA
CAACAACAAGATTACCAATCGCTTCAACAGTCATCACCATATCTAGAAAGTTCACCAGAG
TTCTATGCGGGACTCAGTGAATCTAAATATATGCCACCATCACACTTTAAAAACTCGAGC
TCAGGACCAAATGGAATTTATTCTCGTGTGCCGCGTTATAATGGTTCAGGAGAGAGCTAC
AATGACTTTCCATCGTATGAAGGTGGTCAGCAATTTCAGCAAGTGCCTGGCAGTGCATCG
GCATCCTCTACAAACAATCAACAACAGCAATCTGGCTCATCTAATGATTGGAACATTTCT
CCACATCACTCGCATCACCCTGACTTTCATCCTGCTCATAATCATCACCATTCATCATTA
TCACATCATCCTCATCATGGCCACAATCAACATCAAAATTTCATGAGTCCACTGAATTTA
GATAAGCAATTGTTGAACAATTACAGCATGTTACAAAACAATAACAACAATAATGGTCTA
AATAGTGCACTTTGTGGTACTTTATTACCAGCTGGCTTATCAGCTAATGGCCAACCGTGT
TTCACAGGCTCAGGTCCGATTCAATTGTGGCAATTTTTACTTGAACTCCTCACAGATAAG
TCTTGTCAGAATTTCATTTCATGGACGGGAGATGGATGGGAATTTAAACTAACTGACCCT
GATGAGGTGGCAAGAAGATGGGGCATTCGCAAAAATAAACCAAAAATGAACTATGAAAAA
TTGAGCCGTGGTCTCCGCTACTACTATGATAAAAATATAATTCATAAAACAGCTGGAAAG
CGCTATGTTTATCGATTCGTATGTGATCTACAGGCACTTTTAGGATTATCACCTGAAGAA
GTTCACAAAATGGTTGATTTAAAATCAGACAAAAAGGAAGATGATTAA
>g2900.t1 Gene=g2900 Length=655
MTNEWIDYAENVHIRTTPFKYPSNNNSLLTNNNSFLTNGNMHHQPPQQFYNKMGIKPFNN
NLNNNNNSSTLNQYNLMNKFQKPRDQPQMPPLTPGTDKKLAEALHASFASWEKEVQLFKI
TKDPRLWTPQHVQIWLNWVKKEFSLEINSAEAFFKMHGRDIVGLGREGFLAVAPVYTGDI
LWEHLEILLKDCEKSSSSDQQNLYENVCVSNSSTNTTTSSTDLSDFISNSSTTTSGNTTV
TNTNSSSNNNSNNNSNQLNGQDSFSTSTAGGYTTLHDRSENNNTPPSSTAASTQMSYLNM
NNSLRNGSNNSGTTGNQSNSIYPMLKEENSSSSGNNSSNYPSLSELSNYGITHHPSSYDE
QQQDYQSLQQSSPYLESSPEFYAGLSESKYMPPSHFKNSSSGPNGIYSRVPRYNGSGESY
NDFPSYEGGQQFQQVPGSASASSTNNQQQQSGSSNDWNISPHHSHHPDFHPAHNHHHSSL
SHHPHHGHNQHQNFMSPLNLDKQLLNNYSMLQNNNNNNGLNSALCGTLLPAGLSANGQPC
FTGSGPIQLWQFLLELLTDKSCQNFISWTGDGWEFKLTDPDEVARRWGIRKNKPKMNYEK
LSRGLRYYYDKNIIHKTAGKRYVYRFVCDLQALLGLSPEEVHKMVDLKSDKKEDD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g2900.t1 | Gene3D | G3DSA:1.10.150.50 | Transcription Factor | 96 | 192 | 1.4E-28 |
| 11 | g2900.t1 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 521 | 648 | 4.5E-56 |
| 21 | g2900.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 231 | 259 | - |
| 20 | g2900.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 356 | 375 | - |
| 18 | g2900.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 430 | 455 | - |
| 17 | g2900.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 472 | 489 | - |
| 19 | g2900.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 472 | 491 | - |
| 3 | g2900.t1 | PANTHER | PTHR11849 | ETS | 73 | 655 | 3.0E-126 |
| 4 | g2900.t1 | PANTHER | PTHR11849:SF289 | ETS-LIKE PROTEIN POINTED | 73 | 655 | 3.0E-126 |
| 5 | g2900.t1 | PRINTS | PR00454 | ETS domain signature | 547 | 560 | 3.0E-30 |
| 8 | g2900.t1 | PRINTS | PR00454 | ETS domain signature | 571 | 589 | 3.0E-30 |
| 7 | g2900.t1 | PRINTS | PR00454 | ETS domain signature | 590 | 608 | 3.0E-30 |
| 6 | g2900.t1 | PRINTS | PR00454 | ETS domain signature | 609 | 627 | 3.0E-30 |
| 1 | g2900.t1 | Pfam | PF02198 | Sterile alpha motif (SAM)/Pointed domain | 109 | 191 | 9.2E-22 |
| 2 | g2900.t1 | Pfam | PF00178 | Ets-domain | 548 | 627 | 2.8E-34 |
| 13 | g2900.t1 | ProSitePatterns | PS00345 | Ets-domain signature 1. | 549 | 557 | - |
| 14 | g2900.t1 | ProSitePatterns | PS00346 | Ets-domain signature 2. | 593 | 608 | - |
| 22 | g2900.t1 | ProSiteProfiles | PS51433 | Pointed (PNT) domain profile. | 106 | 192 | 37.777 |
| 23 | g2900.t1 | ProSiteProfiles | PS50061 | Ets-domain profile. | 547 | 627 | 47.683 |
| 15 | g2900.t1 | SMART | SM00251 | SAM2_3 | 108 | 192 | 9.5E-28 |
| 16 | g2900.t1 | SMART | SM00413 | etsneu2 | 546 | 631 | 1.5E-57 |
| 9 | g2900.t1 | SUPERFAMILY | SSF47769 | SAM/Pointed domain | 87 | 192 | 5.89E-24 |
| 10 | g2900.t1 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 539 | 646 | 5.72E-48 |
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:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0043565 | sequence-specific DNA binding | MF |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K02678 (C-ets-1)
Pathway
- This transcript belongs to the following 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.
