Gene loci information

Transcript annotation

  • This transcript has been annotated as Transforming protein p54/c-ets-1.

Parent gene

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.t6 isoform g2900.t6 20975742 20978062
chr_3 g2900 g2900.t6 exon g2900.t6.exon1 20975742 20976796
chr_3 g2900 g2900.t6 TTS g2900.t6 20975745 20975745
chr_3 g2900 g2900.t6 cds g2900.t6.CDS1 20976733 20976796
chr_3 g2900 g2900.t6 exon g2900.t6.exon2 20976857 20977014
chr_3 g2900 g2900.t6 cds g2900.t6.CDS2 20976857 20977014
chr_3 g2900 g2900.t6 exon g2900.t6.exon3 20977078 20977782
chr_3 g2900 g2900.t6 cds g2900.t6.CDS3 20977078 20977782
chr_3 g2900 g2900.t6 exon g2900.t6.exon4 20977838 20978062
chr_3 g2900 g2900.t6 cds g2900.t6.CDS4 20977838 20977996
chr_3 g2900 g2900.t6 TSS g2900.t6 NA NA

Sequences

>g2900.t6 Gene=g2900 Length=2143
ACAACATTACATGATCGAAGCGAAAACAACAACACACCACCATCATCGACAGCAGCATCA
ACACAAATGTCCTACTTGAATATGAATAATTCACTCAGGAATGGAAGCAATAATAGTGGG
ACTACTGGCAATCAATCTAATAGCATTTATCCAATGCTCAAAGAAGAAAATAGTAGCAGC
AGTGGAAATAATTCTTCTAATTATCCTAGCTTAAGTGAATTATCGAATTATGGCATTACA
CATCATCCATCTTCATATGATGAACAACAACAAGATTACCAATCGCTTCAACAGTCATCA
CCATATCTAGAAAGTTCACCAGAGTTCTATGCGGGACTCAGTGAATCTAAATATATGCCA
CCATCACACTTTAAAAACTCGAGCTCAGGACCAAATGGAATTTATTCTCGTGTGCCGCGT
TATAATGGTTCAGGAGAGAGCTACAATGACTTTCCATCGTATGAAGGTGGTCAGCAATTT
CAGCAAGTGCCTGGCAGTGCATCGGCATCCTCTACAAACAATCAACAACAGCAATCTGGC
TCATCTAATGATTGGAACATTTCTCCACATCACTCGCATCACCCTGACTTTCATCCTGCT
CATAATCATCACCATTCATCATTATCACATCATCCTCATCATGGCCACAATCAACATCAA
AATTTCATGAGTCCACTGAATTTAGATAAGCAATTGTTGAACAATTACAGCATGTTACAA
AACAATAACAACAATAATGGTCTAAATAGTGCACTTTGTGGTACTTTATTACCAGCTGGC
TTATCAGCTAATGGCCAACCGTGTTTCACAGGCTCAGGTCCGATTCAATTGTGGCAATTT
TTACTTGAACTCCTCACAGATAAGTCTTGTCAGAATTTCATTTCATGGACGGGAGATGGA
TGGGAATTTAAACTAACTGACCCTGATGAGGTGGCAAGAAGATGGGGCATTCGCAAAAAT
AAACCAAAAATGAACTATGAAAAATTGAGCCGTGGTCTCCGCTACTACTATGATAAAAAT
ATAATTCATAAAACAGCTGGAAAGCGCTATGTTTATCGATTCGTATGTGATCTACAGGCA
CTTTTAGGATTATCACCTGAAGAAGTTCACAAAATGGTTGATTTAAAATCAGACAAAAAG
GAAGATGATTAAATACGCACCGAAGGGCGATGAGCTTCCGTTCATGATATATCATGAATA
AAAACAAGAAGAACTTTCATGTGCCTTATAAACTATTTAAAAATGAAAAGTTATAATGAA
GTCGATGAGCAAATATTTTCTTTCTAATACTGAAAATGAGTGTAAGTTGATCTGTTGTGT
TGTGCATAAAACTGATTCTTGATACTTGATGGTGTAAAAAACAAAACAACATAATTTTTG
TGATAACTTATAAGAAACGTTTTAGATGTTTAGTTTCCTTCATACTTTTTAGTTATTATT
ATTCTACATTATGCTCTACATTATTGGACAAAAAATTTTAATTGTTTTGTCCATACATCG
CTGCTAAATGGATTCTTTTATTTTTAATTCTTATACAATGTGACTGTCATAAATGATTGA
ATTTAACTCTATCGAGTTTACGAGTAATTTCAGATTTTTTTAAACGTAATTAATGATCTC
CAATTAATTTTTTTTTTTTTCCTTTTACGTGAACTTTTTTTTCTCTTCAATACAATGATA
TGATATTCAATCGACGTCACTCAAATATGAAGAAAAATTCAATTTAAAAAAAAAATAAAC
TAAAAAAATATTTACCAAAAATGATGGAAAAAAACCTTTTTTGTGTCTACGTAAATGAAT
GAGAAAGTCTAGCTGTTAAATGAACTTTATGTTAGTTTATCTTTAGAACTTTAGTAAAGC
AAATTGTGCGAGGATGAGTGTAAATAATTTTACTATTTATAATCAATTCTATAGTAAAGA
TAAGTAAAAAGAAGATGAATGAAAGAAAATTTATTTTATGCTTTAGAGTTAAAACTTAAA
AAAAATACTACGTTAAAAGATCAATAATATGATCAACACTTTATATAAAAATTCTAGATT
AAAACTTGATGAGAAAACCTATTGTATTACTGGAATTCTTAAATTAAAAAATCCTTTAAA
AATCATGCGAAAAATAATAAAAGAAATTATTGAAATCATGAAA

>g2900.t6 Gene=g2900 Length=361
MSYLNMNNSLRNGSNNSGTTGNQSNSIYPMLKEENSSSSGNNSSNYPSLSELSNYGITHH
PSSYDEQQQDYQSLQQSSPYLESSPEFYAGLSESKYMPPSHFKNSSSGPNGIYSRVPRYN
GSGESYNDFPSYEGGQQFQQVPGSASASSTNNQQQQSGSSNDWNISPHHSHHPDFHPAHN
HHHSSLSHHPHHGHNQHQNFMSPLNLDKQLLNNYSMLQNNNNNNGLNSALCGTLLPAGLS
ANGQPCFTGSGPIQLWQFLLELLTDKSCQNFISWTGDGWEFKLTDPDEVARRWGIRKNKP
KMNYEKLSRGLRYYYDKNIIHKTAGKRYVYRFVCDLQALLGLSPEEVHKMVDLKSDKKED
D

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2900.t6 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 218 354 1.5E-56
17 g2900.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 23 -
16 g2900.t6 MobiDBLite mobidb-lite consensus disorder prediction 62 81 -
15 g2900.t6 MobiDBLite mobidb-lite consensus disorder prediction 136 161 -
13 g2900.t6 MobiDBLite mobidb-lite consensus disorder prediction 178 197 -
14 g2900.t6 MobiDBLite mobidb-lite consensus disorder prediction 178 195 -
2 g2900.t6 PANTHER PTHR11849 ETS 34 361 6.4E-93
3 g2900.t6 PANTHER PTHR11849:SF289 ETS-LIKE PROTEIN POINTED 34 361 6.4E-93
7 g2900.t6 PRINTS PR00454 ETS domain signature 253 266 3.7E-31
5 g2900.t6 PRINTS PR00454 ETS domain signature 277 295 3.7E-31
4 g2900.t6 PRINTS PR00454 ETS domain signature 296 314 3.7E-31
6 g2900.t6 PRINTS PR00454 ETS domain signature 315 333 3.7E-31
1 g2900.t6 Pfam PF00178 Ets-domain 254 333 1.1E-34
10 g2900.t6 ProSitePatterns PS00345 Ets-domain signature 1. 255 263 -
11 g2900.t6 ProSitePatterns PS00346 Ets-domain signature 2. 299 314 -
18 g2900.t6 ProSiteProfiles PS50061 Ets-domain profile. 253 333 47.683
12 g2900.t6 SMART SM00413 etsneu2 252 337 1.5E-57
8 g2900.t6 SUPERFAMILY SSF46785 Winged helix DNA-binding domain 245 352 1.93E-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

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.

Raw TPM values