General information for g13822.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as AP-3 complex subunit delta.
Parent gene
- The parent gene g13822 is located on chr_1: 32609586..32610618 (- 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_1 | g13822 | g13822.t1 | TTS | g13822.t1 | 32606466 | 32606466 |
| chr_1 | g13822 | g13822.t1 | isoform | g13822.t1 | 32606915 | 32610618 |
| chr_1 | g13822 | g13822.t1 | exon | g13822.t1.exon1 | 32606915 | 32607603 |
| chr_1 | g13822 | g13822.t1 | cds | g13822.t1.CDS1 | 32606915 | 32607603 |
| chr_1 | g13822 | g13822.t1 | exon | g13822.t1.exon2 | 32607662 | 32607818 |
| chr_1 | g13822 | g13822.t1 | cds | g13822.t1.CDS2 | 32607662 | 32607818 |
| chr_1 | g13822 | g13822.t1 | exon | g13822.t1.exon3 | 32607874 | 32609197 |
| chr_1 | g13822 | g13822.t1 | cds | g13822.t1.CDS3 | 32607874 | 32609197 |
| chr_1 | g13822 | g13822.t1 | exon | g13822.t1.exon4 | 32609265 | 32609338 |
| chr_1 | g13822 | g13822.t1 | cds | g13822.t1.CDS4 | 32609265 | 32609338 |
| chr_1 | g13822 | g13822.t1 | exon | g13822.t1.exon5 | 32609586 | 32609930 |
| chr_1 | g13822 | g13822.t1 | cds | g13822.t1.CDS5 | 32609586 | 32609930 |
| chr_1 | g13822 | g13822.t1 | exon | g13822.t1.exon6 | 32609994 | 32610188 |
| chr_1 | g13822 | g13822.t1 | cds | g13822.t1.CDS6 | 32609994 | 32610188 |
| chr_1 | g13822 | g13822.t1 | exon | g13822.t1.exon7 | 32610290 | 32610385 |
| chr_1 | g13822 | g13822.t1 | cds | g13822.t1.CDS7 | 32610290 | 32610385 |
| chr_1 | g13822 | g13822.t1 | exon | g13822.t1.exon8 | 32610511 | 32610618 |
| chr_1 | g13822 | g13822.t1 | cds | g13822.t1.CDS8 | 32610511 | 32610618 |
| chr_1 | g13822 | g13822.t1 | TSS | g13822.t1 | 32610824 | 32610824 |
Sequences
>g13822.t1 Gene=g13822 Length=2988
ATGTCTTTAAATCTTAATATTAAGCAAGTAAAAGGCAATTTGCAGCGTTTATTTGATAAA
AACCTGACTGACTTGGTTCGTGGACTACGAAATAACAAAGATAATGAGGCAAGTTATATT
GCTCAGTGCATTGAAGAGATTAAACAGGAATTACGGATTGACAATATCAGCGTTAAATGT
AATGCTGTCGCGAAATTAACTTATATTCAAATGTGCGGCTACGATATTTCGTGGGCTGGA
TTTAATGTCATCGAAGTCATGAGTTCAAATAAATTTACTTGTAAACGTGTTGGTTATTTA
GCGGCCTCTCAAAGCTTCCATCCAGGCACTGATCTTTTAATGTTAACTACGAATATGATA
CGAAAAGATCTCAGTTCAACAAATCAATATGATGCTGGAGTTGCACTGAGCGGTTTAAGT
TGCTTCATTTCACCAGATTTATCGCGAGATTTGGCAAATGATATAATGACATTGATGAGC
TCCACTAAACCATATTTACGAATGAAAGCCGTCCTTATGATGTATAAGGTTTTTTTAAAT
CATCCAGAAGCACTTCGACCGGCTTTTCCAAAACTTAAAGAAAAATTAGAAGATCCAGAT
CCAGGAGTTCAATCTGCTGCCGTAAATGTGATTTGTGAATTAGCACGAAAGAATCCTAAG
AATTATCTCTCGTTAGCTCCTATATTCTTTAAATTGATGACTACTTCTACCAATAATTGG
ATGCTCATAAAAATTATCAAACTTTTTGGCGCTTTGACACCCATTGAACCGCGTTTAGGA
AAAAAGTTAATTGAACCGCTTACGAATTTAATTCATAGTACATCTGCAATGAGCCTTCTG
TATGAATGTATTAACACAGTAATTGCAGTGTTAATAAGTATTAGCAGTGGAATGCCAAAT
CATATAGCATCAATACAATTGTGCGTGCAAAAATTAAGAATTCTAATAGAGGATTCAGAT
CAAAACTTAAAATATCTCGGATTGCTAGCAATGTCGAAAATACTTAAGACTCATCCGAAG
AGCGTGCAGGCACATAAAGATTTGATTCTCGCATGCCTCGATGATAAAGATGAATCAATT
AGATTGAGAGCTTTGGATTTACTTTATGGTATGGTTTCAAAAAAGAATCTCATGGAGATT
GTAAATAAGTTACTTGGACATTTGGAAAGAGCAGAAGGAAGTGTTTATCGAGATGAGCTT
TTGTTAAAAGTTATTGAAATTTGTTCTCAAGAGTCATATCAACATGTCACAAATTTTGAA
TGGTATTTGACTGTATTAGTTGAATTGATTCAACTTGAAGCTGGCTCAAAGCATGGATCA
GTGATTGCTGATCAACTTTTAGATGTTACAATTCGTGTAGAAACAGTTCGAAAGTTTTCA
GTAAATGAAATGGTGAATTTAATCAACTCTTTTCCATGTTCTTCGCAAACAAGTACTATG
TATGAGGTGCTTTATGCTGCAGCTTGGATTGTTGGAGAATTTACAGATCAATTGGAAGTT
CCTATGGAAACCATCAAGTTATTTCTTCAAGAACGCACTATTCCTGGCCACATTCAAGCT
GTGTTTGTGCAAAATTCTATTAAAATTTTAGTTCACATTATCGAAACATCAATTCAAAAT
GGAAATATTCATGACATCAAAGAAGCTGCAGATATAATGGAGAAAAATATACAACATTTT
CTAAGTTCTGGTGATATTGAAGTGCAAGAAAGAGCTTCTGCTACACAAATGATAGTGGAA
ACTGTTAAATCACTGCTTGGAAATGAAATAGTATCGATAAAACCTGTTACAAATCAAGAT
CTTTTAAATGACCTCAATGATCATGAAAACGGAAATGATTCAGCAACTCTTACTGCTACC
GTTGAAAACTCTCTTCCTCCTGGTCTTGTAGAAATTGTTGCTGATTTAAAATTATTGTAT
GAAGGAGAATTACTTCCAGTTGCACCTAAAGCTCAACGCAAAGTCCAATTGCCGAATGGC
CTTAATTTAGATGAATGGATAAATGGTCCACCAAGTGAGAGTTCAAGCGATGAAGAAGAG
GAAGATAGTAAAGATGGTTTGTTTGTATCAACTTCAGAAAGAAATAACGAACGAGGTAGT
CGTAAAGACAGTTTCGAACCCACACCTGAAGAGCTTGAAAAGATAAAAGAGGCGAGAAAA
ATGCTTCAAGCTCATAATCCAAACTACCTTAAATCTTCACCCTCAAGTAGCCGTGGAAAT
GGTGAAATGAAAGACTATGATAATATCGATGAGATTCCTATTGCCGAATTAAGTCTTGAT
GTTCAACTTAAAGTTCATTCAAAAACTAAAAGATCTGATAAATATCTTGAAGAGAGTCGT
AAAGCTCAACGAAAAGAAAAGAAAGAGGAAAAATCGTCAAAGAAGTCTAAGAAAAAATCG
AAAAAGAGTAAGAAACATCAAGTATCTGAAAGTGAATCAGAAGATGAGGCACATCCAGTT
CATTTGGTTAATACTATGAGTGAATTACCAGAAGGAGCAACACTTTCTGACAATGATGAT
AAAAACGAATTAGATCCAAATGATCCACATCGTGCACTCGACATTAATTTAGATATAGAT
GATGGATTTTATGGACCATCAGCTTCTTCAAATAATGCAGCTTCCAAAACAAAATCAACG
ATCAAAAATACAATTATCAATGATTCAAATGAAGTTGTAAAAACTAAAGATAAGTCTCGT
CGAAAGAAAAAAGAATCAGAGCCTAATTTGTTATTGGAAGGAGAATTAAATGAAAATAAA
AAAGATAAGAAGAAGCACAAGAGAAAAAAAGAGACTGACGATGATATGAATTTATTAGAT
GTAACACCATCACAAATGAATGAACAAAAAGTTAAAAAATCCAAGAAAAAATCTGCAAAG
GATGATAAAGATGAAGATGAGAAACGTGAGAAAGACAAATCAAAGAAACATAAAAAATCG
TCATCAGCTTCATCGAAAAAAAGAAGTGAATATGAAGAAGCGTTTTGA
>g13822.t1 Gene=g13822 Length=995
MSLNLNIKQVKGNLQRLFDKNLTDLVRGLRNNKDNEASYIAQCIEEIKQELRIDNISVKC
NAVAKLTYIQMCGYDISWAGFNVIEVMSSNKFTCKRVGYLAASQSFHPGTDLLMLTTNMI
RKDLSSTNQYDAGVALSGLSCFISPDLSRDLANDIMTLMSSTKPYLRMKAVLMMYKVFLN
HPEALRPAFPKLKEKLEDPDPGVQSAAVNVICELARKNPKNYLSLAPIFFKLMTTSTNNW
MLIKIIKLFGALTPIEPRLGKKLIEPLTNLIHSTSAMSLLYECINTVIAVLISISSGMPN
HIASIQLCVQKLRILIEDSDQNLKYLGLLAMSKILKTHPKSVQAHKDLILACLDDKDESI
RLRALDLLYGMVSKKNLMEIVNKLLGHLERAEGSVYRDELLLKVIEICSQESYQHVTNFE
WYLTVLVELIQLEAGSKHGSVIADQLLDVTIRVETVRKFSVNEMVNLINSFPCSSQTSTM
YEVLYAAAWIVGEFTDQLEVPMETIKLFLQERTIPGHIQAVFVQNSIKILVHIIETSIQN
GNIHDIKEAADIMEKNIQHFLSSGDIEVQERASATQMIVETVKSLLGNEIVSIKPVTNQD
LLNDLNDHENGNDSATLTATVENSLPPGLVEIVADLKLLYEGELLPVAPKAQRKVQLPNG
LNLDEWINGPPSESSSDEEEEDSKDGLFVSTSERNNERGSRKDSFEPTPEELEKIKEARK
MLQAHNPNYLKSSPSSSRGNGEMKDYDNIDEIPIAELSLDVQLKVHSKTKRSDKYLEESR
KAQRKEKKEEKSSKKSKKKSKKSKKHQVSESESEDEAHPVHLVNTMSELPEGATLSDNDD
KNELDPNDPHRALDINLDIDDGFYGPSASSNNAASKTKSTIKNTIINDSNEVVKTKDKSR
RKKKESEPNLLLEGELNENKKDKKKHKRKKETDDDMNLLDVTPSQMNEQKVKKSKKKSAK
DDKDEDEKREKDKSKKHKKSSSASSKKRSEYEEAF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g13822.t1 | Gene3D | G3DSA:1.25.10.10 | - | 7 | 596 | 6.9E-165 |
| 13 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 662 | 709 | - |
| 8 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 695 | 709 | - |
| 16 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 757 | 853 | - |
| 14 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 763 | 790 | - |
| 9 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 805 | 821 | - |
| 10 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 834 | 853 | - |
| 12 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 868 | 995 | - |
| 15 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 868 | 890 | - |
| 7 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 891 | 921 | - |
| 11 | g13822.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 949 | 973 | - |
| 3 | g13822.t1 | PANTHER | PTHR22781 | DELTA ADAPTIN-RELATED | 11 | 987 | 0.0 |
| 4 | g13822.t1 | PANTHER | PTHR22781:SF12 | AP-3 COMPLEX SUBUNIT DELTA-1 | 11 | 987 | 0.0 |
| 18 | g13822.t1 | PIRSF | PIRSF037092 | AP3_delta | 5 | 994 | 0.0 |
| 1 | g13822.t1 | Pfam | PF01602 | Adaptin N terminal region | 37 | 580 | 1.1E-139 |
| 2 | g13822.t1 | Pfam | PF06375 | AP-3 complex subunit delta-1 | 708 | 858 | 2.9E-44 |
| 6 | g13822.t1 | SMART | SM01354 | BLVR_2 | 707 | 858 | 1.5E-57 |
| 5 | g13822.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 33 | 977 | 3.61E-94 |
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:0030123 | AP-3 adaptor complex | CC |
| GO:0015031 | protein transport | BP |
| GO:0016192 | vesicle-mediated transport | BP |
KEGG
Orthology
- This transcript has been annotated with K12396 (AP-3 complex subunit delta)
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.
