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.t6 TSS g10691.t6 11337279 11337279
chr_1 g10691 g10691.t6 isoform g10691.t6 11337700 11338501
chr_1 g10691 g10691.t6 exon g10691.t6.exon1 11337700 11337876
chr_1 g10691 g10691.t6 cds g10691.t6.CDS1 11337700 11337876
chr_1 g10691 g10691.t6 exon g10691.t6.exon2 11337943 11338105
chr_1 g10691 g10691.t6 cds g10691.t6.CDS2 11337943 11338105
chr_1 g10691 g10691.t6 exon g10691.t6.exon3 11338163 11338438
chr_1 g10691 g10691.t6 cds g10691.t6.CDS3 11338163 11338438
chr_1 g10691 g10691.t6 exon g10691.t6.exon4 11338495 11338501
chr_1 g10691 g10691.t6 cds g10691.t6.CDS4 11338495 11338499
chr_1 g10691 g10691.t6 TTS g10691.t6 NA NA

Sequences

>g10691.t6 Gene=g10691 Length=623
ATGATTGGTGGATTATTCGTTTACAATCACAAAGGTGAAGTTCTAATATCTCGTGTTTAT
CGCGATGATATTGGAAGAAATGCTGTTGACGCTTTTAGAGTAAATGTCATTCATGCTCGT
CAACAAGTTAGATCACCCGTGACAAACATCGCAAGAACAAGTTTTTTTCACATAAAAAGA
GCGAATATTTGGTTGGCTGCTGTAACCAAACAAAATGTAAATGCTGCAATGGTTTTCGAA
TTTTTATTGAAAATCATTGATGTCATGCAATCTTACTTTGGAAAAATTTCCGAAGAAAAT
ATTAAAAATAATTTTGTCCTTATTTATGAACTTTTGGACGAAATTCTTGATTTTGGTTAC
CCACAAAATTCTGATACTGGAGTTTTAAAGACATTTATAACGCAACAAGGTATTAAATCA
GCAACAAAAGAAGAGCAGGCGCAAATAACATCTCAAGTCACTGGTCAAATTGGTTGGCGT
AGAGAAGGAATTAAATACAGACGCAATGAACTATTTTTGGATGTTTTGGAATATGTTAAT
TTGCTCATGAGTCCCCAAGGACAAGTATTATCAGCTCATGTCGCTGGGAAAGTTGTTATG
AAATCATTTTTATCAGGTATGCC

>g10691.t6 Gene=g10691 Length=207
MIGGLFVYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHIKR
ANIWLAAVTKQNVNAAMVFEFLLKIIDVMQSYFGKISEENIKNNFVLIYELLDEILDFGY
PQNSDTGVLKTFITQQGIKSATKEEQAQITSQVTGQIGWRREGIKYRRNELFLDVLEYVN
LLMSPQGQVLSAHVAGKVVMKSFLSGM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g10691.t6 CDD cd14836 AP2_Mu_N 1 140 9.51307E-92
10 g10691.t6 Gene3D G3DSA:3.30.450.60 - 1 141 4.3E-59
11 g10691.t6 Gene3D G3DSA:2.60.40.1170 - 157 207 2.6E-18
3 g10691.t6 PANTHER PTHR10529 AP COMPLEX SUBUNIT MU 1 207 3.0E-88
4 g10691.t6 PANTHER PTHR10529:SF236 AP-2 COMPLEX SUBUNIT MU 1 207 3.0E-88
5 g10691.t6 PRINTS PR00314 Clathrin coat assembly protein signature 12 32 1.6E-39
7 g10691.t6 PRINTS PR00314 Clathrin coat assembly protein signature 98 125 1.6E-39
6 g10691.t6 PRINTS PR00314 Clathrin coat assembly protein signature 159 187 1.6E-39
2 g10691.t6 Pfam PF01217 Clathrin adaptor complex small chain 2 126 5.1E-7
1 g10691.t6 Pfam PF00928 Adaptor complexes medium subunit family 158 207 2.0E-14
13 g10691.t6 ProSitePatterns PS00990 Clathrin adaptor complexes medium chain signature 1. 157 177 -
14 g10691.t6 ProSiteProfiles PS51072 Mu homology domain (MHD) profile. 168 207 10.775
8 g10691.t6 SUPERFAMILY SSF64356 SNARE-like 1 139 9.61E-43
9 g10691.t6 SUPERFAMILY SSF49447 Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor 157 207 7.72E-16

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. There were no conditions that were differentially expressed