General information for g17472.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17472 is located on chr_4: 13631167..13633582 (+ 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 | g17472 | g17472.t3 | TSS | g17472.t3 | 13631091 | 13631091 |
| chr_4 | g17472 | g17472.t3 | isoform | g17472.t3 | 13631167 | 13633582 |
| chr_4 | g17472 | g17472.t3 | exon | g17472.t3.exon1 | 13631167 | 13631385 |
| chr_4 | g17472 | g17472.t3 | exon | g17472.t3.exon2 | 13631627 | 13633582 |
| chr_4 | g17472 | g17472.t3 | cds | g17472.t3.CDS1 | 13631774 | 13633096 |
| chr_4 | g17472 | g17472.t3 | TTS | g17472.t3 | NA | NA |
Sequences
>g17472.t3 Gene=g17472 Length=2175
ATGTCGGCCAGTGGAAACAATAAATTGCTAATGACATTTCAAATTGGTCATTTAGCTTCA
TTAAAAACTAAAAAAGACATGTTTGGAATGACACATGATTGGCAATTATTTGTTCGAGCT
GCAAATAATCAAAGTGATGGATCAAATTATGACATTAGTCATTTTGTTGACAAAGTTGTT
TTCAATCTTCATGATTCTTTTCCTAAGCCCAAGAGGACTAAATTTTTCATTTAAGAGTCT
GGTTATGCTGGTTTTGAACTAACAATTGACATTTATTTCAAAAATGAAAGTCGAGACGAT
CCCAAGAAAGCAACATTTTCATATGACTTAGACTTGCAGCCATCAAAAGTTGAAACTAAA
GAATATATGGTAGAAAATCCATCAGAAGATTTTAAAAGAAAATGTCTAAGAGGGGGCTGC
ATAATGTTGGACAATCGTGATTATAAAAATTCTTCAGCTGATGCAATGAAAAAACCAAAA
AGACCAGAAGAAGAAAAATCAAAGACAAAAAAGCCTTCTTCATATTTCACAGAACTTTTT
GGTGATCCAATTGAGAAGACAAGTTCAAAAGTGACAAATAAACCTATTGAAAAACCACCA
ACATCATCATCTGGTTCTGCATCAAAAGATAAGTCAAAAAGTAAACATTCAGATGTTAAA
TCAAGCAGTTCAAAGACTGATGACTCAAAAAAAGATAAATCTCGTGATCGAGAAAGATCT
GAAAAGAAAGAAAAGTCACAAAAGCGAGCAGCATCACCATTGCCTGCACCACCAGTTAAT
CGTGCTAATGATTATTCAAAATCACAGCCAAAAGAACAAATTGATCAACAACCAGCTGCT
AAAAAGAGCAAAAAGAAAAGCAGTGAAAAAGAAAGAGAAAAAAGTGACAAAAAAGAATCG
AAATCGAAGGAAAAGTCAAAAGATCATGAACAAAATCCTTCGTCAAATTCTTCATCAAAA
TTTAAAGAAAGTCATGAAAAACCAACTAAAGAGAAATCAAGTAAAGCAAAAGATTCAGCA
CCACCATCAATATCATCATCACAATCGTTTCCATCAACTGCTGCACGTTCTGATCAACAA
AAGAAAAAAGATGAACGTGAACATAAGCATAAAAGTAAGACAAAATCAAAAGATAAAGAC
AGAAATGAAAAAGTAAAAAGTCAGCCTAAAATTGAAACTTCTTCATCAAAAAATAAAAAT
CCAAATACACAATTGAGTGATGAATCTGATGGAGAACATGCAAGTCAATCTTATAGCAAG
ACTTCAACTGAAAATGAAAAAGGAGCAAATAAAAGAACAAAAAATAATGAAAAGGAAGAA
AATAAGTCAAGAAAAAAAGCAACAGCAGCTGGAACAAAAGAAAATAATCAAGATTTACCA
AGTTCTTCTTCCAGTAAAAATTTACCTCAAGCAACTTCATCTTCTGCTGTAACTGAAAGT
AATACAACTCAAGAATCCTCAAATACAAATTTAAATTCAAATGAATTGAAAATTTCGAAT
GAAAATTTGGAAGAATTGCATTCGTTAAAGAGGAAAATTAATAATATTAAAAATAATGAA
CATTTGCAGCAAGTTGTTCGATTAATTGTAGCAAGTGGATGCTATGAAATTTCTAAAAGT
ACTTTTGATTTTGATTTAGTTCGACTTGATAAAACAACTGTTCAAAGACTTCAAGAATTT
TTTCAATAAACAACATTTTTTTGTTGTAAATCATGTATAAAATATTCTTTTTCAAAAATC
GTAATTAAAATATTTGTCAAATAGTCATCATAATTTTACTTAGAGAATATAGTTGATGTA
AAGATAAAATAAAAGTATTTAATAAAATTAATTTCTAGTTTAATTGTTTCTTTTATTGAT
AAATTTTCTTATATAAATTTTTTTTGGCTATGTGCTTGCAAACGATTTTTTACATAATAT
TTTACCTCTTGAATCATTGCAGAAATCGGATTTTCCCGAAGATATTATCACGATATTGAT
AAGAAAACCTTACAAAAAACTGCAAATTAACAGCTGGTTTTTCAATAGCAGCAAAGATAA
GAAATGTATTTTTATATTATACGACATAATTTGAAATATTTATAAAATCAGAGATAATTA
GCCCAGTTAAGCAATCAATTGGTAGATAATCCTTTTTTTCTAATATTTTAATTAAGTAAG
AATAAACAAATTTTT
>g17472.t3 Gene=g17472 Length=440
MVENPSEDFKRKCLRGGCIMLDNRDYKNSSADAMKKPKRPEEEKSKTKKPSSYFTELFGD
PIEKTSSKVTNKPIEKPPTSSSGSASKDKSKSKHSDVKSSSSKTDDSKKDKSRDRERSEK
KEKSQKRAASPLPAPPVNRANDYSKSQPKEQIDQQPAAKKSKKKSSEKEREKSDKKESKS
KEKSKDHEQNPSSNSSSKFKESHEKPTKEKSSKAKDSAPPSISSSQSFPSTAARSDQQKK
KDEREHKHKSKTKSKDKDRNEKVKSQPKIETSSSKNKNPNTQLSDESDGEHASQSYSKTS
TENEKGANKRTKNNEKEENKSRKKATAAGTKENNQDLPSSSSSKNLPQATSSSAVTESNT
TQESSNTNLNSNELKISNENLEELHSLKRKINNIKNNEHLQQVVRLIVASGCYEISKSTF
DFDLVRLDKTTVQRLQEFFQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g17472.t3 | Coils | Coil | Coil | 377 | 397 | - |
| 15 | g17472.t3 | Gene3D | G3DSA:1.20.1270.290 | - | 347 | 440 | 3.9E-23 |
| 8 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 20 | 373 | - |
| 11 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 28 | 50 | - |
| 12 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 64 | 86 | - |
| 3 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 87 | 127 | - |
| 14 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 140 | 154 | - |
| 5 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 155 | 189 | - |
| 9 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 198 | 215 | - |
| 10 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 216 | 234 | - |
| 7 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 254 | 268 | - |
| 6 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 269 | 302 | - |
| 13 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 303 | 329 | - |
| 4 | g17472.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 330 | 373 | - |
| 2 | g17472.t3 | PANTHER | PTHR47827 | - | 3 | 439 | 6.4E-23 |
| 1 | g17472.t3 | Pfam | PF17793 | ANC1 homology domain (AHD) | 380 | 440 | 2.8E-20 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
