Gene loci information

Transcript annotation

  • This transcript has been annotated as Transforming protein p68/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.t2 TTS g2900.t2 20975745 20975745
chr_3 g2900 g2900.t2 isoform g2900.t2 20976733 20981829
chr_3 g2900 g2900.t2 exon g2900.t2.exon1 20976733 20976796
chr_3 g2900 g2900.t2 cds g2900.t2.CDS1 20976733 20976796
chr_3 g2900 g2900.t2 exon g2900.t2.exon2 20976857 20977014
chr_3 g2900 g2900.t2 cds g2900.t2.CDS2 20976857 20977014
chr_3 g2900 g2900.t2 exon g2900.t2.exon3 20977078 20977782
chr_3 g2900 g2900.t2 cds g2900.t2.CDS3 20977078 20977782
chr_3 g2900 g2900.t2 exon g2900.t2.exon4 20977838 20978067
chr_3 g2900 g2900.t2 cds g2900.t2.CDS4 20977838 20978067
chr_3 g2900 g2900.t2 exon g2900.t2.exon5 20981643 20981829
chr_3 g2900 g2900.t2 cds g2900.t2.CDS5 20981643 20981829
chr_3 g2900 g2900.t2 TSS g2900.t2 20982155 20982155

Sequences

>g2900.t2 Gene=g2900 Length=1344
ATGGTCCTACAAAATTATGGCTTCAATATCAATAGTGATGATGAGACTTTAACTAATGAA
TTGAATAATCGAAAGAGTGACAATTATAGTGATATGATTGCCATGTCGCCATTTGCTGGC
GATTATGCACCAGCAACAAATAATTATATTAATTACACAGATCTGGATGCAAATTACGCG
GCACCAGGTTACACAACATTACATGATCGAAGCGAAAACAACAACACACCACCATCATCG
ACAGCAGCATCAACACAAATGTCCTACTTGAATATGAATAATTCACTCAGGAATGGAAGC
AATAATAGTGGGACTACTGGCAATCAATCTAATAGCATTTATCCAATGCTCAAAGAAGAA
AATAGTAGCAGCAGTGGAAATAATTCTTCTAATTATCCTAGCTTAAGTGAATTATCGAAT
TATGGCATTACACATCATCCATCTTCATATGATGAACAACAACAAGATTACCAATCGCTT
CAACAGTCATCACCATATCTAGAAAGTTCACCAGAGTTCTATGCGGGACTCAGTGAATCT
AAATATATGCCACCATCACACTTTAAAAACTCGAGCTCAGGACCAAATGGAATTTATTCT
CGTGTGCCGCGTTATAATGGTTCAGGAGAGAGCTACAATGACTTTCCATCGTATGAAGGT
GGTCAGCAATTTCAGCAAGTGCCTGGCAGTGCATCGGCATCCTCTACAAACAATCAACAA
CAGCAATCTGGCTCATCTAATGATTGGAACATTTCTCCACATCACTCGCATCACCCTGAC
TTTCATCCTGCTCATAATCATCACCATTCATCATTATCACATCATCCTCATCATGGCCAC
AATCAACATCAAAATTTCATGAGTCCACTGAATTTAGATAAGCAATTGTTGAACAATTAC
AGCATGTTACAAAACAATAACAACAATAATGGTCTAAATAGTGCACTTTGTGGTACTTTA
TTACCAGCTGGCTTATCAGCTAATGGCCAACCGTGTTTCACAGGCTCAGGTCCGATTCAA
TTGTGGCAATTTTTACTTGAACTCCTCACAGATAAGTCTTGTCAGAATTTCATTTCATGG
ACGGGAGATGGATGGGAATTTAAACTAACTGACCCTGATGAGGTGGCAAGAAGATGGGGC
ATTCGCAAAAATAAACCAAAAATGAACTATGAAAAATTGAGCCGTGGTCTCCGCTACTAC
TATGATAAAAATATAATTCATAAAACAGCTGGAAAGCGCTATGTTTATCGATTCGTATGT
GATCTACAGGCACTTTTAGGATTATCACCTGAAGAAGTTCACAAAATGGTTGATTTAAAA
TCAGACAAAAAGGAAGATGATTAA

>g2900.t2 Gene=g2900 Length=447
MVLQNYGFNINSDDETLTNELNNRKSDNYSDMIAMSPFAGDYAPATNNYINYTDLDANYA
APGYTTLHDRSENNNTPPSSTAASTQMSYLNMNNSLRNGSNNSGTTGNQSNSIYPMLKEE
NSSSSGNNSSNYPSLSELSNYGITHHPSSYDEQQQDYQSLQQSSPYLESSPEFYAGLSES
KYMPPSHFKNSSSGPNGIYSRVPRYNGSGESYNDFPSYEGGQQFQQVPGSASASSTNNQQ
QQSGSSNDWNISPHHSHHPDFHPAHNHHHSSLSHHPHHGHNQHQNFMSPLNLDKQLLNNY
SMLQNNNNNNGLNSALCGTLLPAGLSANGQPCFTGSGPIQLWQFLLELLTDKSCQNFISW
TGDGWEFKLTDPDEVARRWGIRKNKPKMNYEKLSRGLRYYYDKNIIHKTAGKRYVYRFVC
DLQALLGLSPEEVHKMVDLKSDKKEDD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2900.t2 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 305 440 2.2E-56
15 g2900.t2 MobiDBLite mobidb-lite consensus disorder prediction 148 167 -
14 g2900.t2 MobiDBLite mobidb-lite consensus disorder prediction 222 247 -
13 g2900.t2 MobiDBLite mobidb-lite consensus disorder prediction 264 281 -
16 g2900.t2 MobiDBLite mobidb-lite consensus disorder prediction 264 283 -
2 g2900.t2 PANTHER PTHR11849 ETS 101 447 2.2E-91
3 g2900.t2 PANTHER PTHR11849:SF289 ETS-LIKE PROTEIN POINTED 101 447 2.2E-91
4 g2900.t2 PRINTS PR00454 ETS domain signature 339 352 7.7E-31
5 g2900.t2 PRINTS PR00454 ETS domain signature 363 381 7.7E-31
6 g2900.t2 PRINTS PR00454 ETS domain signature 382 400 7.7E-31
7 g2900.t2 PRINTS PR00454 ETS domain signature 401 419 7.7E-31
1 g2900.t2 Pfam PF00178 Ets-domain 340 419 1.6E-34
10 g2900.t2 ProSitePatterns PS00345 Ets-domain signature 1. 341 349 -
11 g2900.t2 ProSitePatterns PS00346 Ets-domain signature 2. 385 400 -
17 g2900.t2 ProSiteProfiles PS50061 Ets-domain profile. 339 419 47.683
12 g2900.t2 SMART SM00413 etsneu2 338 423 1.5E-57
8 g2900.t2 SUPERFAMILY SSF46785 Winged helix DNA-binding domain 331 438 2.99E-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