General information for g3372.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as AP-2 complex subunit alpha.
Parent gene
- The parent gene g3372 is located on chr_3: 24953761..24955498 (- strand)
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 | g3372 | g3372.t1 | TTS | g3372.t1 | 24950597 | 24950597 |
| chr_3 | g3372 | g3372.t1 | isoform | g3372.t1 | 24950853 | 24954242 |
| chr_3 | g3372 | g3372.t1 | exon | g3372.t1.exon1 | 24950853 | 24950930 |
| chr_3 | g3372 | g3372.t1 | cds | g3372.t1.CDS1 | 24950853 | 24950930 |
| chr_3 | g3372 | g3372.t1 | exon | g3372.t1.exon2 | 24950993 | 24951197 |
| chr_3 | g3372 | g3372.t1 | cds | g3372.t1.CDS2 | 24950993 | 24951197 |
| chr_3 | g3372 | g3372.t1 | exon | g3372.t1.exon3 | 24951257 | 24951401 |
| chr_3 | g3372 | g3372.t1 | cds | g3372.t1.CDS3 | 24951257 | 24951401 |
| chr_3 | g3372 | g3372.t1 | exon | g3372.t1.exon4 | 24951460 | 24951728 |
| chr_3 | g3372 | g3372.t1 | cds | g3372.t1.CDS4 | 24951460 | 24951728 |
| chr_3 | g3372 | g3372.t1 | exon | g3372.t1.exon5 | 24951792 | 24951917 |
| chr_3 | g3372 | g3372.t1 | cds | g3372.t1.CDS5 | 24951792 | 24951917 |
| chr_3 | g3372 | g3372.t1 | exon | g3372.t1.exon6 | 24951994 | 24953672 |
| chr_3 | g3372 | g3372.t1 | cds | g3372.t1.CDS6 | 24951994 | 24953672 |
| chr_3 | g3372 | g3372.t1 | exon | g3372.t1.exon7 | 24953761 | 24953972 |
| chr_3 | g3372 | g3372.t1 | cds | g3372.t1.CDS7 | 24953761 | 24953972 |
| chr_3 | g3372 | g3372.t1 | exon | g3372.t1.exon8 | 24954179 | 24954242 |
| chr_3 | g3372 | g3372.t1 | cds | g3372.t1.CDS8 | 24954179 | 24954242 |
| chr_3 | g3372 | g3372.t1 | TSS | g3372.t1 | 24954794 | 24954794 |
Sequences
>g3372.t1 Gene=g3372 Length=2778
ATGGCACCAGTTCGTGGTGATGGAATGCGAGGACTTGCAGTTTTCATTTCAGATATACGA
AACTGCAAAAGCAAAGAATCTGAAGTAAAACGTATGAATAAAGAATTGGCAAATATTCGT
AGTAAATTCAAAGGTGATAAGACATTAGACGGTTATCAGAAAAAGAAATATGTGTGTAAG
CTGCTATTCATCTTCCTTCTTGGTCATGACATCGATTTTGGTCATATGGAAGCTGTCAAC
TTACTTTCTTCGAACAAATATTCTGAGAAACAAATTGGTTATCTTTTTATTTCCGTACTT
GTAAACACCAACAGTGATCTGATAAAGCTCATTATTCAGAGCATAAAAAATGATTTGCAA
TCACGTAATCCAATTCATGTAAATTTGGCACTGCAATGTATTGCCAATATTGGTAGTCAA
GATATGGCTGAAGCTTTTTCCAACGAAATTCCAAAACTTTTAGTTTCTGGAGATACAATG
GATGTTGTGAAACAATCGGCAGCTCTTTGCTTATTGCGACTATTTCGCACATGTCCAGAG
ATCATTCCTGGTGGCGAATGGACTAGTCGTATTATTCATTTGCTCAATGATCATCATATG
GGTGTAGTTACAGCTGCAACAAGTCTTATTGATGCTTTGGTAAAGAAAAATCCTGAAGAA
TATAAGGGTTGTGTCAGTTTAGCTGTATCGAGATTATCGCGCATTTTCACAAGCAGTTAT
ACAGATCTTCAAGATTACACATATTACTTTGTTCCAGCTCCATGGCTGTCAGTTAAACTT
CTTCGTTTATTGCAAAATTACAATCCGCCTACAGAAGATCCTGGTGTGCGTGGTCGTTTG
AATGAATGCTTAGAGACAATTCTAAATAAAGCACAAGAACCGCCAAAGAGCAAAAAAGTT
CAGCACTCGAATGCAAAGAATGCAGTTTTGTTTGAAGCGATAAATCTCATTATTCATAAT
GATAGTGAAGCAAATTTATTGGTACGAGCTTGTAATCAGCTTGGTCAGTTCTTATCGAAT
CGTGAAACTAATTTGCGTTATTTGGCATTAGAATCAATGTGTCATTTAGCAACATCAGAG
TTCTCTCATGAAGCTGTCAAGAAACATCAAGAAGTTGTAATTCTTTCAATGAAAATGGAA
AAAGATGTGTCAGTGAGGCAACAAGCTGTTGATTTGCTTTATGCAATGTGCGATAGAAGT
AATGCTGAAGAGATAGTACAAGAAATGCTTAACTATCTCGAAACAGCAGATTATTCCATT
CGTGAAGAAATGGTGCTAAAAGTAGCCATACTTGCTGAAAAATATGCAACAGATTTCACC
TGGTATGTTGATGTCATTTTGAATTTGATTCGTATCGCTGGCGATTATGTTTCGGAAGAA
GTTTGGTATCGAGTCATTCAAATTGTTATTAACCGTGAAGAGGTTCAAGGATACGCAGCG
AAAACAGTATTTGAAGCTCTTCAAGCACCTGCATGTCATGAAAATATGGTCAAAGTCGGT
GGATACATTCTTGGCGAATTTGGTAATCTCATTGCTGGTGATTCTCGTTCTGCGCCTATG
GTGCAATTCAAAATTCTTCACTCAAAATATCATTTATGTTCGTCCATGACAAGAGCGCTT
TTGCTTAGCACATATATAAAGTTCATCAATCTTTTCCCTGAAATTCGTGGAACCATTCAA
GACGTATTTAGACAAGACAGCAATATAAGATCAGCAGATGCTGAACTTCAACAACGTGCA
AGCGAATATCTACAATTAAGTATTGTAGCATCGAAAGACGTATTGGCAACTGTTCTAGAA
GAAATGCCATCATTCCCTGAACGTGAAAGCTCTATTTTAGCAGTTCTTAAAAAGAAAAAA
CCTGGACGTGTACCAGAAAATGAGATCAAAGAAGCAAAAAGTCCTGTGCCCAATCACAAT
ACACAAAATCAAAATAACCATGCAACAAATAATAGTAATCACACAAGCGATTTGCTAGGC
TTAAGTACACCACCATCCCAACAACAAAATTCACAAAGCACTCTTATCGATGTACTAGGA
GATATATACAATCAATCATCAGGCGTTAATAATGCAAAGAAATTCTTGTTTAAAAACAAT
GGTGTTTTGTTTGAAAATGAAATGATTCAGATTGGTGTAAAGAGCGAATTCAGACAAAAT
TTGGGAAGATTGGGATTGTTCTATGGCAATAAGACTCAAGTGCCACTCACAAATTTCCAG
CCCGTTTTACAGTGGAACACAGAAGATTCTAAAAATCTTAATGTACAAATAAAGGCAGTT
GACTCAACTCTAGATGCTGGTGCACAAATTCAACAAATGTTAACAGCTGAATGCATAGAC
AGCTATTCTGATTCTCCATCTTTACAATTGTCATTCCGATATAATGGTACACCACAAAGC
TTCACTATCAAACTACCACTTACAGTAAATAAATTCTTCGAACCAACTGAAATGAACTCG
GAATCATTTTTTGCAAGATGGAAAAATTTGGGAGGAGAAAAACAGCGTGCTCAAAAAGTT
TTCAAAGCTCAACTTCCACTCGATTTGCCAGGTGCAAAAAACAAATTATCTGGCTTTGGT
GTGCAACTTTTAGAAGGTATTGATCCTAATCCCGATAATATGGTGTGTGCTGGAATCATT
CATACACAATCACATCAAGTTGGTTGTTTACTCAGATTAGAACCTAACAAACAGGCACAG
ATGTTCCGTTTGACAGTGAGAGCTAGTAAAGAACAAGTGACTAATGAAATATGCAATCTG
CTTGTTGACCAATTTTAA
>g3372.t1 Gene=g3372 Length=925
MAPVRGDGMRGLAVFISDIRNCKSKESEVKRMNKELANIRSKFKGDKTLDGYQKKKYVCK
LLFIFLLGHDIDFGHMEAVNLLSSNKYSEKQIGYLFISVLVNTNSDLIKLIIQSIKNDLQ
SRNPIHVNLALQCIANIGSQDMAEAFSNEIPKLLVSGDTMDVVKQSAALCLLRLFRTCPE
IIPGGEWTSRIIHLLNDHHMGVVTAATSLIDALVKKNPEEYKGCVSLAVSRLSRIFTSSY
TDLQDYTYYFVPAPWLSVKLLRLLQNYNPPTEDPGVRGRLNECLETILNKAQEPPKSKKV
QHSNAKNAVLFEAINLIIHNDSEANLLVRACNQLGQFLSNRETNLRYLALESMCHLATSE
FSHEAVKKHQEVVILSMKMEKDVSVRQQAVDLLYAMCDRSNAEEIVQEMLNYLETADYSI
REEMVLKVAILAEKYATDFTWYVDVILNLIRIAGDYVSEEVWYRVIQIVINREEVQGYAA
KTVFEALQAPACHENMVKVGGYILGEFGNLIAGDSRSAPMVQFKILHSKYHLCSSMTRAL
LLSTYIKFINLFPEIRGTIQDVFRQDSNIRSADAELQQRASEYLQLSIVASKDVLATVLE
EMPSFPERESSILAVLKKKKPGRVPENEIKEAKSPVPNHNTQNQNNHATNNSNHTSDLLG
LSTPPSQQQNSQSTLIDVLGDIYNQSSGVNNAKKFLFKNNGVLFENEMIQIGVKSEFRQN
LGRLGLFYGNKTQVPLTNFQPVLQWNTEDSKNLNVQIKAVDSTLDAGAQIQQMLTAECID
SYSDSPSLQLSFRYNGTPQSFTIKLPLTVNKFFEPTEMNSESFFARWKNLGGEKQRAQKV
FKAQLPLDLPGAKNKLSGFGVQLLEGIDPNPDNMVCAGIIHTQSHQVGCLLRLEPNKQAQ
MFRLTVRASKEQVTNEICNLLVDQF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g3372.t1 | Coils | Coil | Coil | 22 | 42 | - |
| 12 | g3372.t1 | Gene3D | G3DSA:1.25.10.10 | - | 3 | 621 | 3.9E-227 |
| 10 | g3372.t1 | Gene3D | G3DSA:2.60.40.1230 | - | 683 | 812 | 1.5E-47 |
| 11 | g3372.t1 | Gene3D | G3DSA:3.30.310.10 | - | 813 | 925 | 1.3E-46 |
| 4 | g3372.t1 | PANTHER | PTHR22780:SF30 | AP-2 COMPLEX SUBUNIT ALPHA-2 | 4 | 891 | 0.0 |
| 5 | g3372.t1 | PANTHER | PTHR22780 | ADAPTIN, ALPHA/GAMMA/EPSILON | 4 | 891 | 0.0 |
| 14 | g3372.t1 | PIRSF | PIRSF037091 | AP2_alpha | 2 | 925 | 0.0 |
| 2 | g3372.t1 | Pfam | PF01602 | Adaptin N terminal region | 30 | 587 | 5.0E-150 |
| 1 | g3372.t1 | Pfam | PF02883 | Adaptin C-terminal domain | 699 | 800 | 2.0E-17 |
| 3 | g3372.t1 | Pfam | PF02296 | Alpha adaptin AP2, C-terminal domain | 812 | 920 | 2.6E-42 |
| 9 | g3372.t1 | SMART | SM00809 | alpha_adaptinc2 | 693 | 806 | 9.5E-24 |
| 6 | g3372.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 8 | 590 | 1.65E-112 |
| 7 | g3372.t1 | SUPERFAMILY | SSF49348 | Clathrin adaptor appendage domain | 686 | 811 | 2.2E-39 |
| 8 | g3372.t1 | SUPERFAMILY | SSF55711 | Subdomain of clathrin and coatomer appendage domain | 812 | 925 | 5.3E-42 |
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:0072583 | clathrin-dependent endocytosis | BP |
| GO:0030122 | AP-2 adaptor complex | CC |
| GO:0030131 | clathrin adaptor complex | CC |
| GO:0016192 | vesicle-mediated transport | BP |
| GO:0006886 | intracellular protein transport | BP |
| GO:0030117 | membrane coat | CC |
| GO:0035615 | clathrin adaptor activity | MF |
| GO:0015031 | protein transport | BP |
KEGG
Orthology
- This transcript has been annotated with K11824 (AP-2 complex subunit alpha)
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.
