General information for g17472.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein AF-9.
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.t1 | TSS | g17472.t1 | 13631091 | 13631091 |
| chr_4 | g17472 | g17472.t1 | isoform | g17472.t1 | 13631167 | 13633096 |
| chr_4 | g17472 | g17472.t1 | exon | g17472.t1.exon1 | 13631167 | 13631385 |
| chr_4 | g17472 | g17472.t1 | cds | g17472.t1.CDS1 | 13631167 | 13631385 |
| chr_4 | g17472 | g17472.t1 | exon | g17472.t1.exon2 | 13631556 | 13631583 |
| chr_4 | g17472 | g17472.t1 | cds | g17472.t1.CDS2 | 13631556 | 13631583 |
| chr_4 | g17472 | g17472.t1 | exon | g17472.t1.exon3 | 13631643 | 13633096 |
| chr_4 | g17472 | g17472.t1 | cds | g17472.t1.CDS3 | 13631643 | 13633096 |
| chr_4 | g17472 | g17472.t1 | TTS | g17472.t1 | 13633248 | 13633248 |
Sequences
>g17472.t1 Gene=g17472 Length=1701
ATGTCGGCCAGTGGAAACAATAAATTGCTAATGACATTTCAAATTGGTCATTTAGCTTCA
TTAAAAACTAAAAAAGACATGTTTGGAATGACACATGATTGGCAATTATTTGTTCGAGCT
GCAAATAATCAAAGTGATGGATCAAATTATGACATTAGTCATTTTGTTGACAAAGTTGTT
TTCAATCTTCATGATTCTTTTCCTAAGCCCAAGAGGACTGTAAAAGATCCTCCATATTTA
GTGAAAGAGTCTGGTTATGCTGGTTTTGAACTAACAATTGACATTTATTTCAAAAATGAA
AGTCGAGACGATCCCAAGAAAGCAACATTTTCATATGACTTAGACTTGCAGCCATCAAAA
GTTGAAACTAAAGAATATATGGTAGAAAATCCATCAGAAGATTTTAAAAGAAAATGTCTA
AGAGGGGGCTGCATAATGTTGGACAATCGTGATTATAAAAATTCTTCAGCTGATGCAATG
AAAAAACCAAAAAGACCAGAAGAAGAAAAATCAAAGACAAAAAAGCCTTCTTCATATTTC
ACAGAACTTTTTGGTGATCCAATTGAGAAGACAAGTTCAAAAGTGACAAATAAACCTATT
GAAAAACCACCAACATCATCATCTGGTTCTGCATCAAAAGATAAGTCAAAAAGTAAACAT
TCAGATGTTAAATCAAGCAGTTCAAAGACTGATGACTCAAAAAAAGATAAATCTCGTGAT
CGAGAAAGATCTGAAAAGAAAGAAAAGTCACAAAAGCGAGCAGCATCACCATTGCCTGCA
CCACCAGTTAATCGTGCTAATGATTATTCAAAATCACAGCCAAAAGAACAAATTGATCAA
CAACCAGCTGCTAAAAAGAGCAAAAAGAAAAGCAGTGAAAAAGAAAGAGAAAAAAGTGAC
AAAAAAGAATCGAAATCGAAGGAAAAGTCAAAAGATCATGAACAAAATCCTTCGTCAAAT
TCTTCATCAAAATTTAAAGAAAGTCATGAAAAACCAACTAAAGAGAAATCAAGTAAAGCA
AAAGATTCAGCACCACCATCAATATCATCATCACAATCGTTTCCATCAACTGCTGCACGT
TCTGATCAACAAAAGAAAAAAGATGAACGTGAACATAAGCATAAAAGTAAGACAAAATCA
AAAGATAAAGACAGAAATGAAAAAGTAAAAAGTCAGCCTAAAATTGAAACTTCTTCATCA
AAAAATAAAAATCCAAATACACAATTGAGTGATGAATCTGATGGAGAACATGCAAGTCAA
TCTTATAGCAAGACTTCAACTGAAAATGAAAAAGGAGCAAATAAAAGAACAAAAAATAAT
GAAAAGGAAGAAAATAAGTCAAGAAAAAAAGCAACAGCAGCTGGAACAAAAGAAAATAAT
CAAGATTTACCAAGTTCTTCTTCCAGTAAAAATTTACCTCAAGCAACTTCATCTTCTGCT
GTAACTGAAAGTAATACAACTCAAGAATCCTCAAATACAAATTTAAATTCAAATGAATTG
AAAATTTCGAATGAAAATTTGGAAGAATTGCATTCGTTAAAGAGGAAAATTAATAATATT
AAAAATAATGAACATTTGCAGCAAGTTGTTCGATTAATTGTAGCAAGTGGATGCTATGAA
ATTTCTAAAAGTACTTTTGATTTTGATTTAGTTCGACTTGATAAAACAACTGTTCAAAGA
CTTCAAGAATTTTTTCAATAA
>g17472.t1 Gene=g17472 Length=566
MSASGNNKLLMTFQIGHLASLKTKKDMFGMTHDWQLFVRAANNQSDGSNYDISHFVDKVV
FNLHDSFPKPKRTVKDPPYLVKESGYAGFELTIDIYFKNESRDDPKKATFSYDLDLQPSK
VETKEYMVENPSEDFKRKCLRGGCIMLDNRDYKNSSADAMKKPKRPEEEKSKTKKPSSYF
TELFGDPIEKTSSKVTNKPIEKPPTSSSGSASKDKSKSKHSDVKSSSSKTDDSKKDKSRD
RERSEKKEKSQKRAASPLPAPPVNRANDYSKSQPKEQIDQQPAAKKSKKKSSEKEREKSD
KKESKSKEKSKDHEQNPSSNSSSKFKESHEKPTKEKSSKAKDSAPPSISSSQSFPSTAAR
SDQQKKKDEREHKHKSKTKSKDKDRNEKVKSQPKIETSSSKNKNPNTQLSDESDGEHASQ
SYSKTSTENEKGANKRTKNNEKEENKSRKKATAAGTKENNQDLPSSSSSKNLPQATSSSA
VTESNTTQESSNTNLNSNELKISNENLEELHSLKRKINNIKNNEHLQQVVRLIVASGCYE
ISKSTFDFDLVRLDKTTVQRLQEFFQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g17472.t1 | CDD | cd16906 | YEATS_AF-9_like | 11 | 141 | 1.25524E-51 |
| 18 | g17472.t1 | Coils | Coil | Coil | 503 | 523 | - |
| 16 | g17472.t1 | Gene3D | G3DSA:2.60.40.1970 | - | 2 | 142 | 7.6E-38 |
| 17 | g17472.t1 | Gene3D | G3DSA:1.20.1270.290 | - | 474 | 566 | 1.0E-22 |
| 4 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 155 | 499 | - |
| 5 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 155 | 176 | - |
| 7 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 190 | 212 | - |
| 9 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 213 | 253 | - |
| 8 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 266 | 280 | - |
| 12 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 281 | 315 | - |
| 13 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 324 | 341 | - |
| 14 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 342 | 360 | - |
| 11 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 380 | 394 | - |
| 6 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 395 | 428 | - |
| 15 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 429 | 455 | - |
| 10 | g17472.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 456 | 499 | - |
| 3 | g17472.t1 | PANTHER | PTHR47827 | - | 12 | 565 | 9.9E-75 |
| 2 | g17472.t1 | Pfam | PF03366 | YEATS family | 31 | 119 | 2.4E-25 |
| 1 | g17472.t1 | Pfam | PF17793 | ANC1 homology domain (AHD) | 506 | 566 | 4.0E-20 |
| 19 | g17472.t1 | ProSiteProfiles | PS51037 | YEATS domain profile. | 10 | 122 | 18.286 |
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:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K15187 (YEATS domain-containing protein 1/3)
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.
