Gene loci information

Transcript annotation

  • This transcript has been annotated as AP-2 complex subunit mu.

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 g10691 g10691.t3 TSS g10691.t3 11337279 11337279
chr_1 g10691 g10691.t3 isoform g10691.t3 11337383 11338442
chr_1 g10691 g10691.t3 exon g10691.t3.exon1 11337383 11337386
chr_1 g10691 g10691.t3 exon g10691.t3.exon2 11337640 11337876
chr_1 g10691 g10691.t3 cds g10691.t3.CDS1 11337700 11337876
chr_1 g10691 g10691.t3 exon g10691.t3.exon3 11337943 11338105
chr_1 g10691 g10691.t3 cds g10691.t3.CDS2 11337943 11338105
chr_1 g10691 g10691.t3 exon g10691.t3.exon4 11338163 11338442
chr_1 g10691 g10691.t3 cds g10691.t3.CDS3 11338163 11338440
chr_1 g10691 g10691.t3 TTS g10691.t3 NA NA

Sequences

>g10691.t3 Gene=g10691 Length=684
ACAAAAATATCTTTTCCGGAAATTCGCAGAGCGAAAGAGAGGAAGGGAAATTTAAAGAGT
AAGGATGATTGGTGGATTATTCGTTTACAATCACAAAGGTGAAGTTCTAATATCTCGTGT
TTATCGCGATGATATTGGAAGAAATGCTGTTGACGCTTTTAGAGTAAATGTCATTCATGC
TCGTCAACAAGTTAGATCACCCGTGACAAACATCGCAAGAACAAGTTTTTTTCACATAAA
AAGAGCGAATATTTGGTTGGCTGCTGTAACCAAACAAAATGTAAATGCTGCAATGGTTTT
CGAATTTTTATTGAAAATCATTGATGTCATGCAATCTTACTTTGGAAAAATTTCCGAAGA
AAATATTAAAAATAATTTTGTCCTTATTTATGAACTTTTGGACGAAATTCTTGATTTTGG
TTACCCACAAAATTCTGATACTGGAGTTTTAAAGACATTTATAACGCAACAAGGTATTAA
ATCAGCAACAAAAGAAGAGCAGGCGCAAATAACATCTCAAGTCACTGGTCAAATTGGTTG
GCGTAGAGAAGGAATTAAATACAGACGCAATGAACTATTTTTGGATGTTTTGGAATATGT
TAATTTGCTCATGAGTCCCCAAGGACAAGTATTATCAGCTCATGTCGCTGGGAAAGTTGT
TATGAAATCATTTTTATCAGGTAA

>g10691.t3 Gene=g10691 Length=206
MIGGLFVYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHIKR
ANIWLAAVTKQNVNAAMVFEFLLKIIDVMQSYFGKISEENIKNNFVLIYELLDEILDFGY
PQNSDTGVLKTFITQQGIKSATKEEQAQITSQVTGQIGWRREGIKYRRNELFLDVLEYVN
LLMSPQGQVLSAHVAGKVVMKSFLSG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g10691.t3 CDD cd14836 AP2_Mu_N 1 140 6.95949E-92
10 g10691.t3 Gene3D G3DSA:3.30.450.60 - 1 141 4.2E-59
11 g10691.t3 Gene3D G3DSA:2.60.40.1170 - 157 206 2.4E-17
3 g10691.t3 PANTHER PTHR10529 AP COMPLEX SUBUNIT MU 1 206 2.8E-87
4 g10691.t3 PANTHER PTHR10529:SF236 AP-2 COMPLEX SUBUNIT MU 1 206 2.8E-87
5 g10691.t3 PRINTS PR00314 Clathrin coat assembly protein signature 12 32 1.6E-39
7 g10691.t3 PRINTS PR00314 Clathrin coat assembly protein signature 98 125 1.6E-39
6 g10691.t3 PRINTS PR00314 Clathrin coat assembly protein signature 159 187 1.6E-39
2 g10691.t3 Pfam PF01217 Clathrin adaptor complex small chain 2 126 5.0E-7
1 g10691.t3 Pfam PF00928 Adaptor complexes medium subunit family 158 206 1.3E-13
13 g10691.t3 ProSitePatterns PS00990 Clathrin adaptor complexes medium chain signature 1. 157 177 -
14 g10691.t3 ProSiteProfiles PS51072 Mu homology domain (MHD) profile. 168 206 10.4
8 g10691.t3 SUPERFAMILY SSF64356 SNARE-like 1 139 9.16E-43
9 g10691.t3 SUPERFAMILY SSF49447 Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor 157 206 5.1E-15

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:0030131 clathrin adaptor complex CC
GO:0016192 vesicle-mediated transport BP

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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