General information for g9604.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Islet cell autoantigen 1.
Parent gene
- The parent gene g9604 is located on chr_1: 4257169..4260743 (+ 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 | g9604 | g9604.t1 | isoform | g9604.t1 | 4256492 | 4257918 |
| chr_1 | g9604 | g9604.t1 | exon | g9604.t1.exon1 | 4256492 | 4256577 |
| chr_1 | g9604 | g9604.t1 | cds | g9604.t1.CDS1 | 4256492 | 4256577 |
| chr_1 | g9604 | g9604.t1 | exon | g9604.t1.exon2 | 4256649 | 4257132 |
| chr_1 | g9604 | g9604.t1 | cds | g9604.t1.CDS2 | 4256649 | 4257132 |
| chr_1 | g9604 | g9604.t1 | exon | g9604.t1.exon3 | 4257205 | 4257918 |
| chr_1 | g9604 | g9604.t1 | cds | g9604.t1.CDS3 | 4257205 | 4257918 |
| chr_1 | g9604 | g9604.t1 | TSS | g9604.t1 | NA | NA |
| chr_1 | g9604 | g9604.t1 | TTS | g9604.t1 | NA | NA |
Sequences
>g9604.t1 Gene=g9604 Length=1284
ATGAATCATCAATATTGGCTAACTCGAAATGCAAAAAAACTTCAGAGAAAATTCAATGCA
AAAGAGGATGAAAACATAGTTCATAGCGATATTGAATTAGACTCAAAACTTGAGCTTTTC
AAATCAATCAATGAATCGACAACAAATCTTTCAAATATAGTAGAAAAGTATAGAGATGCT
TTAACAACATTAGCTAATGAAACAACAAATTTAGGTCAGTTTCTTCGTGATTATGGAAAG
AATTCAGCATCCAGCTCTTCAATTATGATGAATTCGGGAAAAGTAATAAGTTATTTGGGA
CAACAGCATTATACAGCAATGTCTTCTTTAACACGACATCTTCAAGAACTTAATACATTT
AAAAGAGCTGTGACTGATAGTAAAGAAACAATACAAGCTATGGAAAAAGAGAGAACAGAA
TATCGAGCAGCATTAACTCTTATGAAAAACTGTGGTGGTGATATCGATCCCGATAGCGGC
AGAGGACTTGAAAAATTCAGAACTTCACAAAAATATGTAAAATTTGCAAAACAAAAATTT
GATAAATTTTCTTTGGCATGTTTACAGAAGATTGATTTACTTTCAGCAGCTAGATGTAAT
CTTTTCAGTTATTCTTTGGCAACTTATCAAAATAACTGGATAACGTTATTGCAAAAGAAT
CAAGAAGTATTGGAAGCACATCTAAGAATAATTGAAAATGAGCCCAAAGTTAAGCATAAT
TTTGGAATTCTCAAAGATTTGGCTCAAGAAATTGATGAACCTTCATCATCGAATGTTGAT
GCTGCTCAAGCTGAACCAGCCAAAGAACTTAATGATAATGATCAGCGTTTATTCTTTGGA
GAGGAATTCAGCGATAGAAGACCAACTGAAAAAAGTGACAATGATAAAATCAATGAGGAA
TCACATTTGACGAAGAGTAATAATAATATTAGTAAGAATGAAGATGAAAAATTAATTGAT
TATGACACATTCGATGAATTTATGATTTCAACAAATATTCCTTTGCCTTCTCAACTTCTA
ATGGATGATTCAATTTTCAATACTGGTGAAATAATGCAATCAAATGTTGATTTACTAGGC
TCATTAGCTGTATCACAAACACATATGCCAAGTGAGTTATTATCAGCTACAAGCAAGGAA
ACCAATAATAGTATTTCACTCAATAAAAATCCGTCTAAAAAAGCAAGTGATGTTAGTAAA
TGGTTTTCGCTATTTTCGGACCTCGATCCACTTAATCAGCAAAAAGAAGTTAATGATGCA
AATGAAAATATGCATGCCGCTTAA
>g9604.t1 Gene=g9604 Length=427
MNHQYWLTRNAKKLQRKFNAKEDENIVHSDIELDSKLELFKSINESTTNLSNIVEKYRDA
LTTLANETTNLGQFLRDYGKNSASSSSIMMNSGKVISYLGQQHYTAMSSLTRHLQELNTF
KRAVTDSKETIQAMEKERTEYRAALTLMKNCGGDIDPDSGRGLEKFRTSQKYVKFAKQKF
DKFSLACLQKIDLLSAARCNLFSYSLATYQNNWITLLQKNQEVLEAHLRIIENEPKVKHN
FGILKDLAQEIDEPSSSNVDAAQAEPAKELNDNDQRLFFGEEFSDRRPTEKSDNDKINEE
SHLTKSNNNISKNEDEKLIDYDTFDEFMISTNIPLPSQLLMDDSIFNTGEIMQSNVDLLG
SLAVSQTHMPSELLSATSKETNNSISLNKNPSKKASDVSKWFSLFSDLDPLNQQKEVNDA
NENMHAA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g9604.t1 | Coils | Coil | Coil | 117 | 144 | - |
| 7 | g9604.t1 | Coils | Coil | Coil | 214 | 234 | - |
| 6 | g9604.t1 | Gene3D | G3DSA:1.20.1270.60 | Arfaptin | 28 | 226 | 4.1E-40 |
| 10 | g9604.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 279 | 302 | - |
| 11 | g9604.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 279 | 309 | - |
| 3 | g9604.t1 | PANTHER | PTHR10164 | ISLET CELL AUTOANTIGEN 1 | 1 | 419 | 2.4E-91 |
| 4 | g9604.t1 | PANTHER | PTHR10164:SF4 | GH23156P | 1 | 419 | 2.4E-91 |
| 1 | g9604.t1 | Pfam | PF06456 | Arfaptin-like domain | 1 | 224 | 5.5E-47 |
| 2 | g9604.t1 | Pfam | PF04629 | Islet cell autoantigen ICA69, C-terminal domain | 335 | 412 | 3.4E-7 |
| 12 | g9604.t1 | ProSiteProfiles | PS50870 | Arfaptin homology (AH) domain profile. | 28 | 229 | 32.542 |
| 9 | g9604.t1 | SMART | SM01015 | Arfaptin_2 | 1 | 224 | 1.1E-45 |
| 5 | g9604.t1 | SUPERFAMILY | SSF103657 | BAR/IMD domain-like | 27 | 225 | 5.49E-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:0019904 | protein domain specific binding | MF |
KEGG
Orthology
- This transcript has been annotated with K19863 (islet cell auto antigen 1)
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.
