Gene loci information

Transcript annotation

  • This transcript has been annotated as AP-1 complex subunit beta-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 g3706 g3706.t4 isoform g3706.t4 27565913 27567654
chr_3 g3706 g3706.t4 exon g3706.t4.exon1 27565913 27567654
chr_3 g3706 g3706.t4 cds g3706.t4.CDS1 27565961 27567652
chr_3 g3706 g3706.t4 TTS g3706.t4 27568620 27568620
chr_3 g3706 g3706.t4 TSS g3706.t4 NA NA

Sequences

>g3706.t4 Gene=g3706 Length=1742
GATTGCGAAGATTCAAATCCGTTGATAAGAGCGTTGGCTGTCAGAACAATGGGATGTATT
CGTGTCGATAAAATTACTGAATATTTATGTGAACCATTGAGAAAGTGTTTAAAAGATGAA
GATCCGTATGTTCGTAAAACTGCCGCTGTATGTGTTGCTAAATTATATGATATTTCAAGC
TCGATGGTTGAAGATCAAGGCTTTTTGGATCAATTGAAAGATTTACTGTCAGATTCAAAT
CCAATGGTTGTTGCAAATGCTGTTGCTGCTTTAAGTGAGATTAATGAATCGTCAGCATCT
GGTCAACCACTTGTTGAATTGAATTCAGCAACAATTAATAAGCTTCTTACTGCTCTCAAT
GAATGTACTGAATGGGGTCAAGTTTTTATTCTCGATTCATTAGCAAATTATACACCAAAA
GATGAACGTGAAGCACAATCAATTTGTGAAAGAATTACACCACGTCTTGCTCATGCAAAT
GCTGCTGTTGTCTTAAGTGCAATCAAAGTGTTGATGAAGTTGCTCGAAATTTTATCATCT
GATAGTGATTTCTGTGCTACATTGACTAAAAAGCTTGCACCACCACTTGTTACTCTTCTT
TCATCCGAAGCAGAGGTACAATATGTAGCATTGAGAAATATCAATTTGATTGTTCAAAAA
CGTCCTGATATTTTGAAACATGAGATGAAAGTTTTCTTCGTCAAATATAATGATCCAATT
TATGTGAAACTCGAGAAATTGGATATCATGATTCGTTTGGCAAATCAAAGTAATATTGCA
CAAGTTTTGAGTGAATTAAAAGAATATGCAACAGAAGTTGATGTTGATTTTGTTCGTAAA
GCAGTAAGAGCTATTGGTCGCTGTGCAATAAAAGTTGAGCCATCTGCTGAACGATGTGTT
TCAACATTACTTGAATTAATTCAAACTAAAGTCAACTATGTGGTTCAAGAAGCTATTGTT
GTTATTAAAGATATCTTTAGAAAATATCCAAATAAATATGAAAGCATCATTAGTACATTG
TGTGAGAATTTGGATACACTTGATGAGCCTGAAGCTCGAGCATCGATGGTATGGATTATT
GGTGAATATGCAGAAAGAATTGACAATGCTGATGAGTTGCTTGATAGCTTTTTGGAAGGA
TTCCAAGATGAGAATGCTCAAGTGCAGTTGCAGCTTTTGACAGCTGTTGTAAAATTATTT
CTTAAACGACCAGCTGATACACAAGAATTGGTTCAACATGTTTTATCTCTCGCTACACAA
GATAGTGATAACCCTGATTTGCGAGATCGAGGTTTCATTTACTGGCGTTTATTATCAACA
GATCCAGCAGCTGCAAAAGAAGTAGTTTTGGCTGATAAACCATTAATTTCTGAGGAAACT
GATTTATTGGAACCAACACTACTCGATGAATTGATTTGTCATATTGCATCATTGGCAAGT
GTTTACCATAAGCCGCCAACAGCATTTGTTGAAGGTCGTACAGCTGGTGTTCGTAAATCA
CTTCCTAATCGTACCATTCCAAGTGCTAGTGATCATGATAATAATGTCGAAGCAACAGTA
ATTCCAAGTCAAGACTCATTAATTGGTGATCTTTTGTCAATGGATATTGGAGATATTAAT
GCACCTGCTCCTGCTTCATCTGTAATTCCTCAACAGCACAGCAATGTTGATTTACTTGGT
GGTGGTCTTGATATTTTATTAGGTGGTCCCGCACCAACAGCAGTCGAACCCGCAACTTTA
AA

>g3706.t4 Gene=g3706 Length=564
MGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLYDISSSMVEDQGFLDQLKDLL
SDSNPMVVANAVAALSEINESSASGQPLVELNSATINKLLTALNECTEWGQVFILDSLAN
YTPKDEREAQSICERITPRLAHANAAVVLSAIKVLMKLLEILSSDSDFCATLTKKLAPPL
VTLLSSEAEVQYVALRNINLIVQKRPDILKHEMKVFFVKYNDPIYVKLEKLDIMIRLANQ
SNIAQVLSELKEYATEVDVDFVRKAVRAIGRCAIKVEPSAERCVSTLLELIQTKVNYVVQ
EAIVVIKDIFRKYPNKYESIISTLCENLDTLDEPEARASMVWIIGEYAERIDNADELLDS
FLEGFQDENAQVQLQLLTAVVKLFLKRPADTQELVQHVLSLATQDSDNPDLRDRGFIYWR
LLSTDPAAAKEVVLADKPLISEETDLLEPTLLDELICHIASLASVYHKPPTAFVEGRTAG
VRKSLPNRTIPSASDHDNNVEATVIPSQDSLIGDLLSMDIGDINAPAPASSVIPQQHSNV
DLLGGGLDILLGGPAPTAVEPATL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g3706.t4 Gene3D G3DSA:1.25.10.10 - 1 483 0
2 g3706.t4 PANTHER PTHR11134:SF31 AP-1 COMPLEX SUBUNIT BETA-1 1 531 0
3 g3706.t4 PANTHER PTHR11134 ADAPTOR COMPLEX SUBUNIT BETA FAMILY MEMBER 1 531 0
6 g3706.t4 PIRSF PIRSF002291 Beta_adaptin 1 539 0
1 g3706.t4 Pfam PF01602 Adaptin N terminal region 1 424 0
4 g3706.t4 SUPERFAMILY SSF48371 ARM repeat 1 471 0

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:0006886 intracellular protein transport BP
GO:0030117 membrane coat CC
GO:0030276 clathrin binding MF
GO:0015031 protein transport BP
GO:0016192 vesicle-mediated transport BP

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. There were no conditions that were differentially expressed