General information for g3372.t5
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.t5 | TTS | g3372.t5 | 24950855 | 24950855 |
| chr_3 | g3372 | g3372.t5 | isoform | g3372.t5 | 24951792 | 24954242 |
| chr_3 | g3372 | g3372.t5 | exon | g3372.t5.exon1 | 24951792 | 24951917 |
| chr_3 | g3372 | g3372.t5 | cds | g3372.t5.CDS1 | 24951794 | 24951917 |
| chr_3 | g3372 | g3372.t5 | exon | g3372.t5.exon2 | 24951994 | 24953672 |
| chr_3 | g3372 | g3372.t5 | cds | g3372.t5.CDS2 | 24951994 | 24953672 |
| chr_3 | g3372 | g3372.t5 | exon | g3372.t5.exon3 | 24953761 | 24953972 |
| chr_3 | g3372 | g3372.t5 | cds | g3372.t5.CDS3 | 24953761 | 24953972 |
| chr_3 | g3372 | g3372.t5 | exon | g3372.t5.exon4 | 24954179 | 24954242 |
| chr_3 | g3372 | g3372.t5 | cds | g3372.t5.CDS4 | 24954179 | 24954242 |
| chr_3 | g3372 | g3372.t5 | TSS | g3372.t5 | 24954794 | 24954794 |
Sequences
>g3372.t5 Gene=g3372 Length=2081
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
GATATATACAATCAATCATCAGGCGTTAATAATGCAAAGAA
>g3372.t5 Gene=g3372 Length=693
MAPVRGDGMRGLAVFISDIRNCKSKESEVKRMNKELANIRSKFKGDKTLDGYQKKKYVCK
LLFIFLLGHDIDFGHMEAVNLLSSNKYSEKQIGYLFISVLVNTNSDLIKLIIQSIKNDLQ
SRNPIHVNLALQCIANIGSQDMAEAFSNEIPKLLVSGDTMDVVKQSAALCLLRLFRTCPE
IIPGGEWTSRIIHLLNDHHMGVVTAATSLIDALVKKNPEEYKGCVSLAVSRLSRIFTSSY
TDLQDYTYYFVPAPWLSVKLLRLLQNYNPPTEDPGVRGRLNECLETILNKAQEPPKSKKV
QHSNAKNAVLFEAINLIIHNDSEANLLVRACNQLGQFLSNRETNLRYLALESMCHLATSE
FSHEAVKKHQEVVILSMKMEKDVSVRQQAVDLLYAMCDRSNAEEIVQEMLNYLETADYSI
REEMVLKVAILAEKYATDFTWYVDVILNLIRIAGDYVSEEVWYRVIQIVINREEVQGYAA
KTVFEALQAPACHENMVKVGGYILGEFGNLIAGDSRSAPMVQFKILHSKYHLCSSMTRAL
LLSTYIKFINLFPEIRGTIQDVFRQDSNIRSADAELQQRASEYLQLSIVASKDVLATVLE
EMPSFPERESSILAVLKKKKPGRVPENEIKEAKSPVPNHNTQNQNNHATNNSNHTSDLLG
LSTPPSQQQNSQSTLIDVLGDIYNQSSGVNNAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3372.t5 | Coils | Coil | Coil | 22 | 42 | - |
| 6 | g3372.t5 | Gene3D | G3DSA:1.25.10.10 | - | 3 | 621 | 1.5E-227 |
| 5 | g3372.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 649 | 672 | - |
| 2 | g3372.t5 | PANTHER | PTHR22780:SF33 | AP-2 COMPLEX SUBUNIT ALPHA-1 | 4 | 683 | 0.0 |
| 3 | g3372.t5 | PANTHER | PTHR22780 | ADAPTIN, ALPHA/GAMMA/EPSILON | 4 | 683 | 0.0 |
| 8 | g3372.t5 | PIRSF | PIRSF037094 | AP1_gamma | 9 | 693 | 1.1E-121 |
| 1 | g3372.t5 | Pfam | PF01602 | Adaptin N terminal region | 30 | 587 | 2.0E-150 |
| 4 | g3372.t5 | SUPERFAMILY | SSF48371 | ARM repeat | 8 | 590 | 6.14E-113 |
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:0005794 | Golgi apparatus | CC |
| GO:0030121 | AP-1 adaptor complex | CC |
| GO:0016192 | vesicle-mediated 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.
