Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative CREB-regulated transcription coactivator 3.

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_1 g13079 g13079.t2 TSS g13079.t2 27836529 27836529
chr_1 g13079 g13079.t2 isoform g13079.t2 27837201 27845665
chr_1 g13079 g13079.t2 exon g13079.t2.exon1 27837201 27837314
chr_1 g13079 g13079.t2 cds g13079.t2.CDS1 27837201 27837314
chr_1 g13079 g13079.t2 exon g13079.t2.exon2 27844762 27844879
chr_1 g13079 g13079.t2 cds g13079.t2.CDS2 27844762 27844879
chr_1 g13079 g13079.t2 exon g13079.t2.exon3 27844940 27845097
chr_1 g13079 g13079.t2 cds g13079.t2.CDS3 27844940 27845097
chr_1 g13079 g13079.t2 exon g13079.t2.exon4 27845150 27845421
chr_1 g13079 g13079.t2 cds g13079.t2.CDS4 27845150 27845421
chr_1 g13079 g13079.t2 exon g13079.t2.exon5 27845494 27845665
chr_1 g13079 g13079.t2 cds g13079.t2.CDS5 27845494 27845665
chr_1 g13079 g13079.t2 TTS g13079.t2 27845939 27845939

Sequences

>g13079.t2 Gene=g13079 Length=834
ATGGCAAATCCTCGAAAATTTTCGGAAAAAATAGCGCTATTAAATCAGAAGGAAGCAGAA
GGCAATGCTGAATTTGAGCGCATTATGCGTGAAGTGTCTGAAGTGTCAGCAAAGGGTGAC
GAATCGGGCACACCAACAACGACTTTAGCCGGACTCTTGACAACTGGATATATTAACGAT
TCGAATAAGAATGGCAATGCAGACAGCAAGTCGACAGCAAGGGAATCAAGAGGTCGGAGT
GTGGGTGGTGGTCCAATGCGTTCACGCCGAAATATTGACACATCACCGTATAGTAGTAAC
AACAATGCTTATCTAAGTCCTCCACAGGAATCGAGTTGGCGAAGGACGTCTTCTGATTCG
GCCATTCATCAGAGTCTAACGCAAGCTCAAGACATGCATAATAACGTTCACCAATCATTA
ATGTTAAGTCCGCGCGCTCATAAGCGATTGTCAAACAGTCAAAGCAACAGCATGAAGAAT
CTGCATCATCAGCAGCAACCAATTAATCAACAGCACAGTCTCAGTCAACAAAATATGCAA
CAAACGACTTTACTGGCACAGCAGGTGATGCATCAGCAGAGTATGCCACAGCAGCATTTA
GTGATGAACAACTTACAGCAAGACATGAAATCAAGATCGGTGTCTCGTCTACCAGGCATT
CATGTTTATCCAACTTCACAGAATGATGAGCTACTTCAAATACCTGTCGGCAATAGCACT
GGATCTCTGCCGGATCTGACGCTCGTACACTTTCAGCAGTCACCAATCTCAAATCCACTC
GATCCTCAAGAACAGCAACATTTAATAACGACAGTTACGAGTTCATTTACTACT

>g13079.t2 Gene=g13079 Length=278
MANPRKFSEKIALLNQKEAEGNAEFERIMREVSEVSAKGDESGTPTTTLAGLLTTGYIND
SNKNGNADSKSTARESRGRSVGGGPMRSRRNIDTSPYSSNNNAYLSPPQESSWRRTSSDS
AIHQSLTQAQDMHNNVHQSLMLSPRAHKRLSNSQSNSMKNLHHQQQPINQQHSLSQQNMQ
QTTLLAQQVMHQQSMPQQHLVMNNLQQDMKSRSVSRLPGIHVYPTSQNDELLQIPVGNST
GSLPDLTLVHFQQSPISNPLDPQEQQHLITTVTSSFTT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g13079.t2 MobiDBLite mobidb-lite consensus disorder prediction 60 120 -
6 g13079.t2 MobiDBLite mobidb-lite consensus disorder prediction 91 120 -
3 g13079.t2 PANTHER PTHR13589 CREB-REGULATED TRANSCRIPTION COACTIVATOR 1 268 1.9E-44
4 g13079.t2 PANTHER PTHR13589:SF15 CREB-REGULATED TRANSCRIPTION COACTIVATOR, ISOFORM B 1 268 1.9E-44
2 g13079.t2 Pfam PF12884 Transducer of regulated CREB activity, N terminus 3 41 1.1E-17
1 g13079.t2 Pfam PF12885 Transducer of regulated CREB activity middle domain 115 275 2.6E-11

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:0008140 cAMP response element binding protein binding MF
GO:0005634 nucleus CC
GO:0051289 protein homotetramerization BP
GO:0032793 positive regulation of CREB transcription factor activity BP
GO:0005737 cytoplasm CC

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