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.t4 TSS g10691.t4 11337279 11337279
chr_1 g10691 g10691.t4 isoform g10691.t4 11337383 11339080
chr_1 g10691 g10691.t4 exon g10691.t4.exon1 11337383 11337386
chr_1 g10691 g10691.t4 exon g10691.t4.exon2 11337640 11337876
chr_1 g10691 g10691.t4 cds g10691.t4.CDS1 11337700 11337876
chr_1 g10691 g10691.t4 exon g10691.t4.exon3 11337943 11338105
chr_1 g10691 g10691.t4 cds g10691.t4.CDS2 11337943 11338105
chr_1 g10691 g10691.t4 exon g10691.t4.exon4 11338163 11338438
chr_1 g10691 g10691.t4 cds g10691.t4.CDS3 11338163 11338438
chr_1 g10691 g10691.t4 exon g10691.t4.exon5 11338495 11339080
chr_1 g10691 g10691.t4 cds g10691.t4.CDS4 11338495 11339078
chr_1 g10691 g10691.t4 TTS g10691.t4 11339597 11339597

Sequences

>g10691.t4 Gene=g10691 Length=1266
ACAAAAATATCTTTTCCGGAAATTCGCAGAGCGAAAGAGAGGAAGGGAAATTTAAAGAGT
AAGGATGATTGGTGGATTATTCGTTTACAATCACAAAGGTGAAGTTCTAATATCTCGTGT
TTATCGCGATGATATTGGAAGAAATGCTGTTGACGCTTTTAGAGTAAATGTCATTCATGC
TCGTCAACAAGTTAGATCACCCGTGACAAACATCGCAAGAACAAGTTTTTTTCACATAAA
AAGAGCGAATATTTGGTTGGCTGCTGTAACCAAACAAAATGTAAATGCTGCAATGGTTTT
CGAATTTTTATTGAAAATCATTGATGTCATGCAATCTTACTTTGGAAAAATTTCCGAAGA
AAATATTAAAAATAATTTTGTCCTTATTTATGAACTTTTGGACGAAATTCTTGATTTTGG
TTACCCACAAAATTCTGATACTGGAGTTTTAAAGACATTTATAACGCAACAAGGTATTAA
ATCAGCAACAAAAGAAGAGCAGGCGCAAATAACATCTCAAGTCACTGGTCAAATTGGTTG
GCGTAGAGAAGGAATTAAATACAGACGCAATGAACTATTTTTGGATGTTTTGGAATATGT
TAATTTGCTCATGAGTCCCCAAGGACAAGTATTATCAGCTCATGTCGCTGGGAAAGTTGT
TATGAAATCATTTTTATCAGGTATGCCGGAATGTAAATTTGGTATTAATGATAAAATCGT
TATGGAAGCCAAGGGTCGTGGAGGTATATCTGGAAATACTGAAGCAGAAACATCACGATC
AGGCAAACCTGTAGTCGTTATTGATGATTGCCAATTTCATCAGTGCGTTAAATTGAGCAA
ATTTGAAACAGAACATTCTATAAGCTTCATTCCACCTGATGGTGAATTTGAATTGATGCG
TTATCGTACAACAAAAGATATATCATTGCCATTCCGTGTTATTCCATTGGTGCGTGAAGT
CGGTCGAACAAAAATGGAGGTCAAAGTTGTTTTAAAATCTAACTTCAAACCTTCACTACT
TGGGCAGAAGATTGAAGTGAAAATTCCAACACCACTCAATACATCTGGTGTGCAGCTTAT
TTGTTTGAAAGGAAAAGCCAAATATAAGGCTTCGGAGAACGCAATCGTTTGGAAAATTAA
AAGAATGGCTGGTATGAAGGAAACTCAATTATCAGCAGAAATTGAATTGCTAGAAACGGA
CACGAAGAAGAAATGGACTCGACCACCAATTTCGATGAACTTTGAAGTTCCATTTGCTCC
ATCTGG

>g10691.t4 Gene=g10691 Length=400
MIGGLFVYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHIKR
ANIWLAAVTKQNVNAAMVFEFLLKIIDVMQSYFGKISEENIKNNFVLIYELLDEILDFGY
PQNSDTGVLKTFITQQGIKSATKEEQAQITSQVTGQIGWRREGIKYRRNELFLDVLEYVN
LLMSPQGQVLSAHVAGKVVMKSFLSGMPECKFGINDKIVMEAKGRGGISGNTEAETSRSG
KPVVVIDDCQFHQCVKLSKFETEHSISFIPPDGEFELMRYRTTKDISLPFRVIPLVREVG
RTKMEVKVVLKSNFKPSLLGQKIEVKIPTPLNTSGVQLICLKGKAKYKASENAIVWKIKR
MAGMKETQLSAEIELLETDTKKKWTRPPISMNFEVPFAPS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g10691.t4 CDD cd14836 AP2_Mu_N 1 140 1.92872E-92
17 g10691.t4 CDD cd09251 AP-2_Mu2_Cterm 166 398 4.13065E-150
13 g10691.t4 Gene3D G3DSA:3.30.450.60 - 1 141 2.3E-58
14 g10691.t4 Gene3D G3DSA:2.60.40.1170 - 159 400 1.5E-84
15 g10691.t4 Gene3D G3DSA:2.60.40.1170 - 288 397 1.5E-84
3 g10691.t4 PANTHER PTHR10529 AP COMPLEX SUBUNIT MU 1 398 1.4E-170
4 g10691.t4 PANTHER PTHR10529:SF236 AP-2 COMPLEX SUBUNIT MU 1 398 1.4E-170
16 g10691.t4 PIRSF PIRSF005992 AP_complex_mu 1 400 1.9E-127
8 g10691.t4 PRINTS PR00314 Clathrin coat assembly protein signature 12 32 9.6E-67
10 g10691.t4 PRINTS PR00314 Clathrin coat assembly protein signature 98 125 9.6E-67
9 g10691.t4 PRINTS PR00314 Clathrin coat assembly protein signature 159 187 9.6E-67
5 g10691.t4 PRINTS PR00314 Clathrin coat assembly protein signature 246 273 9.6E-67
7 g10691.t4 PRINTS PR00314 Clathrin coat assembly protein signature 315 330 9.6E-67
6 g10691.t4 PRINTS PR00314 Clathrin coat assembly protein signature 355 366 9.6E-67
2 g10691.t4 Pfam PF01217 Clathrin adaptor complex small chain 2 126 2.5E-6
1 g10691.t4 Pfam PF00928 Adaptor complexes medium subunit family 158 396 1.9E-68
20 g10691.t4 ProSitePatterns PS00990 Clathrin adaptor complexes medium chain signature 1. 157 177 -
19 g10691.t4 ProSitePatterns PS00991 Clathrin adaptor complexes medium chain signature 2. 266 280 -
21 g10691.t4 ProSiteProfiles PS51072 Mu homology domain (MHD) profile. 168 400 38.881
11 g10691.t4 SUPERFAMILY SSF64356 SNARE-like 1 139 5.04E-42
12 g10691.t4 SUPERFAMILY SSF49447 Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor 157 400 4.45E-76

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