General information for g15723.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as AP-3 complex subunit beta-2.
Parent gene
- The parent gene g15723 is located on chr_4: 6553683..6563516 (+ 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_4 | g15723 | g15723.t1 | TSS | g15723.t1 | 6550321 | 6550321 |
| chr_4 | g15723 | g15723.t1 | isoform | g15723.t1 | 6550436 | 6553683 |
| chr_4 | g15723 | g15723.t1 | exon | g15723.t1.exon1 | 6550436 | 6550517 |
| chr_4 | g15723 | g15723.t1 | cds | g15723.t1.CDS1 | 6550436 | 6550517 |
| chr_4 | g15723 | g15723.t1 | exon | g15723.t1.exon2 | 6550583 | 6551130 |
| chr_4 | g15723 | g15723.t1 | cds | g15723.t1.CDS2 | 6550583 | 6551130 |
| chr_4 | g15723 | g15723.t1 | exon | g15723.t1.exon3 | 6551203 | 6553683 |
| chr_4 | g15723 | g15723.t1 | cds | g15723.t1.CDS3 | 6551203 | 6553683 |
| chr_4 | g15723 | g15723.t1 | TTS | g15723.t1 | NA | NA |
Sequences
>g15723.t1 Gene=g15723 Length=3111
ATGTTATCAGGTCCAGCAGCAATAACAGGACAACTTCCAGGTCGCTCTTCATATGCAAAT
AGCATCGACACCGATGTCTATGATCCAGCATCAAACAGTATTTTTCAAAATTATAAAAAA
CATGACGATCTCAAGCAAATGTTGGACAGCAACAAAGACAGTCTTAAACTTGAGGCAATG
AAAAGAATTATCGGCATGATTGCAAAAGGAAAAGATGCCAGCGACCTATTTCCAGCTGTT
GTCAAAAATGTTGTTTCTAAAAATATTGAAGTTAAAAAACTTGTTTATGTTTTTCTCGTT
CGTTATGCTGAAGAACAGCAAGACCTTGCATTGCTATCAATTTCAACATTCCAGCGAGCT
CTAAAAGATCCAAATCAATTGATTAGAGCAAGTGCATTGAGAGTTTTATCAAGCATTCGT
GTGAGTTTGATTGTTCCAATTGTTATGCTGTCAATTAAAGATGCAGCTCAAGATATGAGC
CCTTATGTGAGAAAAACAGCAGCACATGCTATACCAAAATTGTACAATCTTGATCCAGAA
CAGAAAGAAGAATTAATTTTGGTTATTGAAAAATTGTTGTCTGATAGAACGACTTTAGTA
GTAGGATCTGCTGTTATGGCTTATGAAGAGGTCTGCCCAGAAAGAATTGAATTAATTCAC
AAAAACTACCGAAAACTTTGCAATCTTTTGGTCGATGTTGATGAATGGGGACAATTGCTT
ATCATTAATATGCTTACTCGTTATGCTCGAACACAGTTCACTGATCCAAATATTGAAGAT
GAAGTTGCAAGTGATCAAGAAGACAAACCATTTTATGATGGCAGCTCTGAGTCTGAAAAA
TCTTTTAAAAAACCAACTTATACTCTTGATCCTGATCATCGATTGCTATTAAGACAAACA
AAGCCACTTTTGCAATCACGTAATGCAGCTGTTGTGATGGCAGTTGCACAACTTTACCAT
CATGTTGCACCTAAAAATGATGTCACAATTGTTGCAAAAGCTTTAATTCGATTACTTAGA
AATCATACAGAAGTGCAAAGTGTTGTTCTGACTTGTATTGCATCAATGACTTTAAGTCGT
AAGGCAATTTTTGAGCCTTTTTTGAAATTCTTTTTTGTCCGTACTTGTGATCCAACTCAT
ATAAAATTATTGAAACTTGATATTATGACAAATTTAGCCAACGAAGGAAGTATTGCAATA
ATTTTGCGTGAATTTCAAACTTATATCAGTAGCAATGATCGAGAATTTGTAGCTGCAACA
ATTCAAGGTATTGGACGATGTGCAGCAACAATTAATGAAGTTACTGAAACTTGCTTAAGT
GGTCTTGTTCATTTGCTCTCAAATCGTGATGAACATGTTGTTGCTGAAGCTGTTGTGGTC
ATTAAAAAACTTTTGCAATCTCAAAATACTGAACATCGTCGAATCATCACTCAAATGTCA
AAACTTCTTGATTTCATAACTGTTCCAGCTGCTCGTGCTTCAATTCTTTGGCTTATTGGT
GAATATAATGAGCATGTTCCAAAAATTGCTCCCGATGTTCTTCGTAAAATGGCAAAATCA
TTTGTCGATGAAGAAAATGGTGTAAAACTTCAAGTTTTGAATCTCGCTGTAAAACTTTTC
CTCAATAATCCACAACAAACTGAATTACTTTGTCAACATATTTTTAATCTTGCTAAATAT
GATGTCAATTATGATATCAGAGATCGTGCAAGATTTCTTAAACCATTTGTCTTCTGTAAA
AATCCAAACTCACCAATCATTCAAAATGCAAAGAAAATTTTCCTTGCAACTAAAAAAGCA
CCGCAACTTGAAAGCAAATATACAGGTCGTGAAAGTTATCAACTTGGAAGTATGTCGCAC
TTTTTGAATCAACGTGTAAATGGATATCAGCCATTGCCTGATTTTCCTACTACAGCACCT
GATGCAAGTGTTCGCAATGTTGAGTCACCAACACATGAAAGATCATCCAATGATTCTATC
AATAAGGAAAAAGCAATCCCAATGTCGAAAAAATATAAAAATTCTAAGAAATCATTTTAT
TCTGAAAGCGAATCTGATGAAGATGCATCAAGTAGCAGTGAAAGTAGCGATGAAGCAAGT
GACAGTGATGAAATTGTTGAAAATAATAAAAATAACAACAATAATAACCATGAAAGTGAA
GATAGCGAAAGTGACAGCAGTAGCAGCACTGAAAGTGACTCAGAATCTGAAAGTGAAAGT
GACAATGATGAAAAGGAAACAACTGCAGCATCAGCAACAAAACAAACTCCTAAAAAATCA
AATCTTGATCTACTTTTGGATCTTGATGAAGTTGCACCGGTTTCAACAGTTATGACACCA
TCACTCGGTGGATTTTTGACCCCAATGACACCAGTAAATCCTCAAACAAATAAAATTGAA
CTTGTTGGCCCAAGTTATGTTGCTAACAATACAATGGAATTGTTGAATAAAGTCAATGGC
TATGGTTTAGGTATAACTTACAAATATACACGAGCTCCACATCTTTTTTCATCAAATATG
ATTTCAATCGAGCTGCATTTTACAAATCATGGAAATGTTGAACTTTGCGATATTCAATGT
GGTGCTAAAAACTTGGCAAGTGGCATGACAATGAACGAATTTGCACCGATTGGTCAATTA
ATGCCAAAACAAACTTTGATGGGAATTTTAGGTATTGATTTTAATGATTCGAGTCAAGCT
GCAAATTTTGATGTAAAATCAACTGGTGGAACAAGCAAAGTGACAATTAAGCCACCAATT
GGTGAACTTATGAGAAGTGTCACTCTATCAGAAGCAATGTTTAAAGAAGAACGAGGAAAA
TTGAGAGGAATGAGTGAAGCAACTTGCAAAGTGCAATTGAAGGCTGAATTGTGTGACAAA
CGAGCTATGCAGATGAAAATTTATGAAATTGCTAATGTTGCAGCGATTGATCATAGCGAG
ACAAATGACTTGCTTCTTTTTGCTGGTCAAACAATGAATTCAAAGAGTCTTGTATTGATT
TCGATTGAATTTACATCACAAGATACTGCAACAGTAACTGTAAACTGTGAAAAAGTTGTC
ATTGGTTCTATTTTAATTAATGAGATTAAAGATGCGATTAAGAAAATTTAA
>g15723.t1 Gene=g15723 Length=1036
MLSGPAAITGQLPGRSSYANSIDTDVYDPASNSIFQNYKKHDDLKQMLDSNKDSLKLEAM
KRIIGMIAKGKDASDLFPAVVKNVVSKNIEVKKLVYVFLVRYAEEQQDLALLSISTFQRA
LKDPNQLIRASALRVLSSIRVSLIVPIVMLSIKDAAQDMSPYVRKTAAHAIPKLYNLDPE
QKEELILVIEKLLSDRTTLVVGSAVMAYEEVCPERIELIHKNYRKLCNLLVDVDEWGQLL
IINMLTRYARTQFTDPNIEDEVASDQEDKPFYDGSSESEKSFKKPTYTLDPDHRLLLRQT
KPLLQSRNAAVVMAVAQLYHHVAPKNDVTIVAKALIRLLRNHTEVQSVVLTCIASMTLSR
KAIFEPFLKFFFVRTCDPTHIKLLKLDIMTNLANEGSIAIILREFQTYISSNDREFVAAT
IQGIGRCAATINEVTETCLSGLVHLLSNRDEHVVAEAVVVIKKLLQSQNTEHRRIITQMS
KLLDFITVPAARASILWLIGEYNEHVPKIAPDVLRKMAKSFVDEENGVKLQVLNLAVKLF
LNNPQQTELLCQHIFNLAKYDVNYDIRDRARFLKPFVFCKNPNSPIIQNAKKIFLATKKA
PQLESKYTGRESYQLGSMSHFLNQRVNGYQPLPDFPTTAPDASVRNVESPTHERSSNDSI
NKEKAIPMSKKYKNSKKSFYSESESDEDASSSSESSDEASDSDEIVENNKNNNNNNHESE
DSESDSSSSTESDSESESESDNDEKETTAASATKQTPKKSNLDLLLDLDEVAPVSTVMTP
SLGGFLTPMTPVNPQTNKIELVGPSYVANNTMELLNKVNGYGLGITYKYTRAPHLFSSNM
ISIELHFTNHGNVELCDIQCGAKNLASGMTMNEFAPIGQLMPKQTLMGILGIDFNDSSQA
ANFDVKSTGGTSKVTIKPPIGELMRSVTLSEAMFKEERGKLRGMSEATCKVQLKAELCDK
RAMQMKIYEIANVAAIDHSETNDLLLFAGQTMNSKSLVLISIEFTSQDTATVTVNCEKVV
IGSILINEIKDAIKKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g15723.t1 | Gene3D | G3DSA:1.25.10.10 | - | 31 | 630 | 1.0E-184 |
| 13 | g15723.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 264 | 283 | - |
| 12 | g15723.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 640 | 757 | - |
| 10 | g15723.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 647 | 684 | - |
| 11 | g15723.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 687 | 702 | - |
| 9 | g15723.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 725 | 742 | - |
| 4 | g15723.t1 | PANTHER | PTHR11134 | ADAPTOR COMPLEX SUBUNIT BETA FAMILY MEMBER | 34 | 722 | 0.0 |
| 6 | g15723.t1 | PANTHER | PTHR11134:SF10 | AP-3 COMPLEX SUBUNIT BETA-1 | 34 | 722 | 0.0 |
| 3 | g15723.t1 | PANTHER | PTHR11134 | ADAPTOR COMPLEX SUBUNIT BETA FAMILY MEMBER | 709 | 1033 | 0.0 |
| 5 | g15723.t1 | PANTHER | PTHR11134:SF10 | AP-3 COMPLEX SUBUNIT BETA-1 | 709 | 1033 | 0.0 |
| 16 | g15723.t1 | PIRSF | PIRSF037096 | AP3_beta | 13 | 730 | 0.0 |
| 15 | g15723.t1 | PIRSF | PIRSF037096 | AP3_beta | 707 | 1035 | 1.6E-75 |
| 1 | g15723.t1 | Pfam | PF01602 | Adaptin N terminal region | 38 | 577 | 5.1E-170 |
| 2 | g15723.t1 | Pfam | PF14796 | Clathrin-adaptor complex-3 beta-1 subunit C-terminal | 759 | 899 | 4.2E-48 |
| 8 | g15723.t1 | SMART | SM01355 | AP3B1_C_2 | 758 | 899 | 5.1E-60 |
| 7 | g15723.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 42 | 601 | 9.6E-99 |
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:0016192 | vesicle-mediated transport | BP |
KEGG
Orthology
- This transcript has been annotated with K12397 (AP-3 complex subunit beta)
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.
