Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cyclic AMP-responsive element-binding protein 3-like protein 4.

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 g3849 g3849.t11 TSS g3849.t11 28352135 28352135
chr_3 g3849 g3849.t11 isoform g3849.t11 28352802 28354530
chr_3 g3849 g3849.t11 exon g3849.t11.exon1 28352802 28352974
chr_3 g3849 g3849.t11 exon g3849.t11.exon2 28353042 28353274
chr_3 g3849 g3849.t11 exon g3849.t11.exon3 28353344 28354530
chr_3 g3849 g3849.t11 cds g3849.t11.CDS1 28353583 28354530
chr_3 g3849 g3849.t11 TTS g3849.t11 28354712 28354712

Sequences

>g3849.t11 Gene=g3849 Length=1593
TGGCTAGATTCGATTTTGTCGGATGAGTTATTGAATGCAGCAGATTTTGGAGGACAAGAT
GATATTTTCACAAATGAACTCGAGAATGCTATATTTGTAGATGATAATTTTAATGAGCCT
ATTTTTTCGTCTGCCGCATCAGATAGCGGATTGTCAAGTGATAATTTAGATTTGGATATA
AACAATGATTTTGATTTATTAAGCTCATGTTTACCATCTCCTGAAAGTGAGAGCAACAAC
AGTTATAATGAGAAAAAACCCGTAAAAGCTAATGCTAAATCTCAGCGCCAACAACAACAA
CAAAAAGAAGCCATACCTATACAAAAGCGTGGCACAAGAAACAGTACTAAGAACCATAGA
AACAGTTCGTTGACGAAAACAAGTAATAACAACAACTTGAAGAAAGAAGACTCTAAAAAC
AATCAAAGCAAAAATGGAATTAATAAATCACGTTCAATTATTGTACCGGTCACATCACAA
AACATCAAAGAGATTCGCTCTATAAAAATTGTCAACTCTGGATCTTCACAATTGAAATCA
GCAAATATAAAAGCAGTCGCAGCAAATCTTTTACAGAAATCAAAACAAGGTCTTTTACAA
AAGAATATCCTTATTCCAAAACAAGATATTGAGGATGATGCAAATATGTTAAATTTCGAC
GAAATAATGCATGAAACTGATGAAATGATTGCTGCACATGAAGAAAATGATGATGAAAAC
GAAGATGACGATGACATTTCCTCATCAGAAAGTTGCTCTTCGGGCTATCCAAAGCTGGTG
CTAACAAATGAAGAGAAACGTCTCCTTGCAAAAGAAGGAATAACATTACCGTCAAGTTAC
CCACTTACAAAACAAGAAGAGCGAGAGCTCAAACGTATTCGTCGTAAAATTCGCAACAAG
ATTTCTGCACAGGATTCACGTAAACGCAAGAAGGAATATATTGATGGTTTAGAAGAGCGT
GTCAAACAGTGCTCAGAAGAGAATCACATTTTATTGAAAAGAATTAAAGTATTGCAATCA
CAAAATTATGACCTTATGTCAAAAATGAAAAAGTTACAGACATTACTTACAAAGAGTACA
GGCAAGACAGCGCAACCTGCAACATGTCTAATGATTTTGCTTTTATCTATGGCACTTGTT
GCTGTACCAAACTTGAAACTTGGCAAACAGAGTGCACAAGATTTAGTTACTGCATTTGGT
GAACAACAAAATCGACGTAATTTGTTATTTGACCTTAAATCTGAATTAGAGGATTTGGAG
TCAACAAATTTTATGCAAACAAACTTTGTTCCTGGCGAACACGATTACATCGAGAATGTC
TACAAATATATCGAGTCAAATGACATTCCATCTTCACAGCCACCAGAAAAGAGATCGAAA
ACATTAATTGATTATGATATTGATTCTATGGATAAATGGGAACTACAGAAACGATCACAC
GATGACTTTGTTGATATGGACTATGAGATGGACACAAATGAAACAGAATTGCTGCTGCAA
CAAATTGGAAAGAATTTTTCAACTACAGATTCTCAACGAATTTTGGCCGAAAGCATAATA
AATCTATCAAAACTGCAGCAACAACAGCACTAA

>g3849.t11 Gene=g3849 Length=315
MLNFDEIMHETDEMIAAHEENDDENEDDDDISSSESCSSGYPKLVLTNEEKRLLAKEGIT
LPSSYPLTKQEERELKRIRRKIRNKISAQDSRKRKKEYIDGLEERVKQCSEENHILLKRI
KVLQSQNYDLMSKMKKLQTLLTKSTGKTAQPATCLMILLLSMALVAVPNLKLGKQSAQDL
VTAFGEQQNRRNLLFDLKSELEDLESTNFMQTNFVPGEHDYIENVYKYIESNDIPSSQPP
EKRSKTLIDYDIDSMDKWELQKRSHDDFVDMDYEMDTNETELLLQQIGKNFSTTDSQRIL
AESIINLSKLQQQQH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g3849.t11 CDD cd14689 bZIP_CREB3 75 135 4.75449E-25
9 g3849.t11 Coils Coil Coil 68 88 -
10 g3849.t11 Coils Coil Coil 92 119 -
8 g3849.t11 Gene3D G3DSA:1.20.5.170 - 76 126 5.0E-16
17 g3849.t11 MobiDBLite mobidb-lite consensus disorder prediction 15 43 -
16 g3849.t11 MobiDBLite mobidb-lite consensus disorder prediction 17 33 -
2 g3849.t11 PANTHER PTHR45996:SF3 AGAP001464-PB 36 281 1.6E-83
3 g3849.t11 PANTHER PTHR45996 AGAP001464-PB 36 281 1.6E-83
6 g3849.t11 PRINTS PR00043 Jun transcription factor signature 61 81 5.9E-5
5 g3849.t11 PRINTS PR00043 Jun transcription factor signature 83 99 5.9E-5
4 g3849.t11 PRINTS PR00043 Jun transcription factor signature 101 113 5.9E-5
1 g3849.t11 Pfam PF00170 bZIP transcription factor 72 134 2.6E-15
12 g3849.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 148 -
13 g3849.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 149 167 -
11 g3849.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 168 315 -
18 g3849.t11 ProSiteProfiles PS50217 Basic-leucine zipper (bZIP) domain profile. 74 137 11.45
15 g3849.t11 SMART SM00338 brlzneu 72 136 3.3E-18
7 g3849.t11 SUPERFAMILY SSF57959 Leucine zipper domain 75 133 7.73E-14

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:0003677 DNA binding MF
GO:0006355 regulation of transcription, DNA-templated BP
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