Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Transcription factor AP-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_4 g16387 g16387.t2 TTS g16387.t2 9304846 9304846
chr_4 g16387 g16387.t2 isoform g16387.t2 9305333 9307079
chr_4 g16387 g16387.t2 exon g16387.t2.exon1 9305333 9305592
chr_4 g16387 g16387.t2 exon g16387.t2.exon2 9305756 9306338
chr_4 g16387 g16387.t2 cds g16387.t2.CDS1 9306178 9306338
chr_4 g16387 g16387.t2 exon g16387.t2.exon3 9306409 9306742
chr_4 g16387 g16387.t2 cds g16387.t2.CDS2 9306409 9306742
chr_4 g16387 g16387.t2 exon g16387.t2.exon4 9306822 9307079
chr_4 g16387 g16387.t2 cds g16387.t2.CDS3 9306822 9307079
chr_4 g16387 g16387.t2 TSS g16387.t2 9307271 9307271

Sequences

>g16387.t2 Gene=g16387 Length=1435
ATGAGAAACTTACGAGGAAGTGATCAATCTAAGCCCGTCGATAATAATTCAAATATGATG
AAAAGACCATTAACACTAGATTTAAATAAGAAAATAAACACTGCAGGCGGAAGTCAGCTG
TTATTGACAACTCCTGATGTAGAAAAAATGGTGATAAAAAGTCCAGAATTAGAAAATTTT
ATTCTTAATGCTGACACACTTCAAACACCTGGACAAATACTTCCAACTCCTTCAACTTCT
GCTGCCTTTGCTCCTAAAATAACACAAGAACAAGAAATGTATGCAAAAGGCTTTGAAGAA
GCGCTCAATAAAATAAAAACTCAACAAGAAGGAACAGTTTCAGTCCCAGTTCCACAACAG
TCAATAACAAAGCCAACACCTAGTATGAGTGGAGGTGGAATCAATTACAGCGAATCAGAC
AGTTCAAATTTAATTATTCAACAAATTAAAGAAGAACCTCAACAACCACCAAGTCCACAA
CAAGAACAAAGTTTAAATCCTATTGACATGGAATCACAAGAAAGAATTAAATTGGAAAGA
AAAAGACAGAGAAATCGTGTTGCTGCTTCAAAATGTAGAAAACGAAAACTTGAGAGAATT
TCAAAACTTGAAGATCGCGTAAAAGTCCTCAAAGTAGAAAACCATGAACTTGGTGCAGTT
TTAGTGAACCTTAAGCAACATGTTTTTGACCTTAAACAACAAGTTATTGAACATCATCAA
AATTATGGTTGTAAAATTACACTAAAAAACTGAGATGAGGAGAATGCTGAGGTTGAAGTA
GAACAGCAACAAAAAAGTGATGATGAAAGTTATAAATATGATGAAGATGAAGAAGAAGAA
GATAGTGACAAAAGTTAAAATTAAATACTTTTAGTGTAAATTTTGTGGGTGAAGAAAAAA
AAAACAAGTGCTTGGTCTTAGGCCATATTTCAATGCAATATTTTTTAAATGCTTAGCGAT
TTTATTTTTGTTAATTTAAGGAAAATATAACGATATAATTTAAATTTTTCTTTTAATATA
AAAAATATTTTTATTATTTCCTATTGAATTCTAAGAATGTTAGCCAATTCATTGACAAGA
AATTTTTAATTTTAAAATTTGAAAATCTTAAAATTTTAAATGCATTTTAAATTATACGCA
GAGTCCGAAATAGTTTAGAGTTAGAAATAGTAGCATTGGTTTTTAGTTATTTACAACTAA
TATACCAAACGGTTTCTTGAATGACTTTTTGAAGGAAAGAAAATTTCAATAGTGATTACA
ATTTTAGAAAACAAATTGAAACAAAAAGGAAATTTCAAGGTTAAAAATTTATTTTTAAAA
AATGTCAAAAATTATCAGAATTCAAGTTGATAATTTTAAACATTTTGATGATTTGACTGA
AGCACTCTGAAAAATTGATGAGTTTCAAAGTTTAATTTTTTAAACTTTTTGTGAC

>g16387.t2 Gene=g16387 Length=250
MRNLRGSDQSKPVDNNSNMMKRPLTLDLNKKINTAGGSQLLLTTPDVEKMVIKSPELENF
ILNADTLQTPGQILPTPSTSAAFAPKITQEQEMYAKGFEEALNKIKTQQEGTVSVPVPQQ
SITKPTPSMSGGGINYSESDSSNLIIQQIKEEPQQPPSPQQEQSLNPIDMESQERIKLER
KRQRNRVAASKCRKRKLERISKLEDRVKVLKVENHELGAVLVNLKQHVFDLKQQVIEHHQ
NYGCKITLKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g16387.t2 CDD cd14696 bZIP_Jun 177 237 3.84287E-26
14 g16387.t2 Coils Coil Coil 193 213 -
13 g16387.t2 Gene3D G3DSA:1.20.5.170 - 177 238 1.9E-18
18 g16387.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 22 -
4 g16387.t2 PANTHER PTHR11462:SF8 TRANSCRIPTION FACTOR AP-1 14 142 2.3E-42
6 g16387.t2 PANTHER PTHR11462 JUN TRANSCRIPTION FACTOR-RELATED 14 142 2.3E-42
3 g16387.t2 PANTHER PTHR11462:SF8 TRANSCRIPTION FACTOR AP-1 146 248 2.3E-42
5 g16387.t2 PANTHER PTHR11462 JUN TRANSCRIPTION FACTOR-RELATED 146 248 2.3E-42
9 g16387.t2 PRINTS PR00043 Jun transcription factor signature 162 182 1.6E-23
10 g16387.t2 PRINTS PR00043 Jun transcription factor signature 184 200 1.6E-23
8 g16387.t2 PRINTS PR00043 Jun transcription factor signature 202 214 1.6E-23
7 g16387.t2 PRINTS PR00043 Jun transcription factor signature 217 231 1.6E-23
11 g16387.t2 PRINTS PR00043 Jun transcription factor signature 231 246 1.6E-23
2 g16387.t2 Pfam PF03957 Jun-like transcription factor 15 131 2.8E-12
1 g16387.t2 Pfam PF00170 bZIP transcription factor 173 235 1.1E-17
17 g16387.t2 ProSitePatterns PS00036 Basic-leucine zipper (bZIP) domain signature. 180 195 -
19 g16387.t2 ProSiteProfiles PS50217 Basic-leucine zipper (bZIP) domain profile. 175 238 11.473
16 g16387.t2 SMART SM00338 brlzneu 173 237 3.6E-14
12 g16387.t2 SUPERFAMILY SSF57959 Leucine zipper domain 177 235 1.63E-12

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