General information for g12284.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as WD repeat domain phosphoinositide-interacting protein 2.
Parent gene
- The parent gene g12284 is located on chr_1: 22142807..22145776 (- 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 | g12284 | g12284.t1 | TTS | g12284.t1 | 22141915 | 22141915 |
| chr_1 | g12284 | g12284.t1 | isoform | g12284.t1 | 22142807 | 22145776 |
| chr_1 | g12284 | g12284.t1 | exon | g12284.t1.exon1 | 22142807 | 22143913 |
| chr_1 | g12284 | g12284.t1 | cds | g12284.t1.CDS1 | 22142807 | 22143913 |
| chr_1 | g12284 | g12284.t1 | exon | g12284.t1.exon2 | 22144503 | 22144674 |
| chr_1 | g12284 | g12284.t1 | cds | g12284.t1.CDS2 | 22144503 | 22144674 |
| chr_1 | g12284 | g12284.t1 | exon | g12284.t1.exon3 | 22145697 | 22145776 |
| chr_1 | g12284 | g12284.t1 | cds | g12284.t1.CDS3 | 22145697 | 22145776 |
| chr_1 | g12284 | g12284.t1 | TSS | g12284.t1 | 22145885 | 22145885 |
Sequences
>g12284.t1 Gene=g12284 Length=1359
ATGAGTGATATTAAAAAAATCTGTGAAACTAAAAAATCAAGCAATGGAAAATTTAGAATA
AACTTTAATCAAGATTATACATCATTATCTGTGGCTAATGAATGCGGTTATAAGCTTTTC
TCGATACTCTCGGCGAATAAAGTTGATGAAATTTTTAACAGCGAAAGCAATGTCGATACG
AAAATCGCAGAACGTCTCTTTGGTTCAAGCTTGGTGTCTGTCGTTATCACTCGAGAATCA
AATAAGTTGAAAATTGTTCATTTCAAGAAAAGGACGGACATTTGTGAATTTAAATACCCT
AAGAACATTCTCAGCGTGAAAATGAACCGATCACGTTTGGTTGTGTGTCTTAAAGATAGC
ATTTATATTCATAATATTCGCGATATGAAACTTCTTCAATCAATTAAACCATTGCCTGAC
AATGTGAGCGGTCTAATTACACTCAGTTTGAATTCTCATCTTGCATATCCATGTTCGAAA
GAATGCGGGAATATACAAATTTATGATGCTGGTAATCTTCAACCAAGAATTCTGATTGAA
GCGCATAGTACCAATATTGCGGCTATGAATTTTTCTTCGACTGGTAGTCTTCTTGCTACA
GCTTCTATTAAGGGCACAGTAATTAGAGTATTTTGCGTTAGAAATGGACAACGTGTGATG
GAATTTAGAAGAGGTGTTAAACGCTATGCTCAAATTGTTTCTCTTAATTTTAGCATTTGC
GGAAATTTTGTTTCTGTTAGTTCAAATACTGAAACAATTCATGTTTTTAAAATCGATCAG
AAAGCAAAGGAAGCAGCAGAGAAACGTCAAGATAAGAGTGCATTAAATGAAAGTGGCGAT
GAAGAAGAACGGACAGATGAGCGCTCAGGCATTATGAAAGCATTTTCAAAAGCAGTAGAA
ACGCTTATTCCAGTCAGCACAATGCTCTATCAAGACCGTGCATTTGCACATGTTCAACTG
AGTGAACCAGGGCTTCGATACACTTGTGTAGTTGCTAAATTAGAAAAAGATCTTCGTTTA
ATGGTTGCATGTGAAGATGGCTTCTTGTATATTTACAATCTTGATCAGAACGGTGGTGAA
TGTAAGCTACTCAAGTGTCATGATTTGCGAGGTGATTACGACATTACAGAATTAAATGGA
AATGAAACTTCATGTGAATCTCTAAATCCACCAGAAGTTGATCTTAAAAATAATGAAAAA
ATTATGACAAGTCCAGCTTTTGAGACAAGTTTTGCACAAATTATGAAAGGTAAGCCTGTT
GTTGATAAACAATTATCGAACGTTCCTGTAGATGTTTTTCCAAACAATAATGTTCAGATG
TTCGATGAGACAAATTTTCCACCCATGTGTCAAGCATGA
>g12284.t1 Gene=g12284 Length=452
MSDIKKICETKKSSNGKFRINFNQDYTSLSVANECGYKLFSILSANKVDEIFNSESNVDT
KIAERLFGSSLVSVVITRESNKLKIVHFKKRTDICEFKYPKNILSVKMNRSRLVVCLKDS
IYIHNIRDMKLLQSIKPLPDNVSGLITLSLNSHLAYPCSKECGNIQIYDAGNLQPRILIE
AHSTNIAAMNFSSTGSLLATASIKGTVIRVFCVRNGQRVMEFRRGVKRYAQIVSLNFSIC
GNFVSVSSNTETIHVFKIDQKAKEAAEKRQDKSALNESGDEEERTDERSGIMKAFSKAVE
TLIPVSTMLYQDRAFAHVQLSEPGLRYTCVVAKLEKDLRLMVACEDGFLYIYNLDQNGGE
CKLLKCHDLRGDYDITELNGNETSCESLNPPEVDLKNNEKIMTSPAFETSFAQIMKGKPV
VDKQLSNVPVDVFPNNNVQMFDETNFPPMCQA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12284.t1 | Coils | Coil | Coil | 258 | 278 | - |
| 5 | g12284.t1 | Gene3D | G3DSA:2.130.10.10 | - | 7 | 278 | 9.5E-20 |
| 4 | g12284.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 267 | 288 | - |
| 1 | g12284.t1 | PANTHER | PTHR11227:SF24 | AUTOPHAGY-RELATED 18B, ISOFORM A | 18 | 394 | 9.2E-150 |
| 2 | g12284.t1 | PANTHER | PTHR11227 | WD-REPEAT PROTEIN INTERACTING WITH PHOSPHOINOSIDES WIPI -RELATED | 18 | 394 | 9.2E-150 |
| 3 | g12284.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 75 | 357 | 2.9E-27 |
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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K17908 (autophagy-related protein 18)
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.
