General information for g11768.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as WW domain-containing protein ZK1098.1.
Parent gene
- The parent gene g11768 is located on chr_1: 18342801..18343527 (+ 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 | g11768 | g11768.t1 | TSS | g11768.t1 | 18341300 | 18341300 |
| chr_1 | g11768 | g11768.t1 | isoform | g11768.t1 | 18341376 | 18343527 |
| chr_1 | g11768 | g11768.t1 | exon | g11768.t1.exon1 | 18341376 | 18341492 |
| chr_1 | g11768 | g11768.t1 | cds | g11768.t1.CDS1 | 18341376 | 18341492 |
| chr_1 | g11768 | g11768.t1 | exon | g11768.t1.exon2 | 18341558 | 18342338 |
| chr_1 | g11768 | g11768.t1 | cds | g11768.t1.CDS2 | 18341558 | 18342338 |
| chr_1 | g11768 | g11768.t1 | exon | g11768.t1.exon3 | 18342398 | 18343527 |
| chr_1 | g11768 | g11768.t1 | cds | g11768.t1.CDS3 | 18342398 | 18343527 |
| chr_1 | g11768 | g11768.t1 | TTS | g11768.t1 | 18343606 | 18343606 |
Sequences
>g11768.t1 Gene=g11768 Length=2028
ATGGCCACATTCGAGTGGAGTGAGCATCGAGCACCTGATGGAAGAACTTACTATTATAAT
AATGTAACAAAAGAAAGTCGTTGGGATAAGCCAGATGTTTTAAAATCGCCGGCTGAGCGA
TTATTGTCTGCATGCCCATGGAAGGAATACACATCTGATTCAGGCAAACTTTATTATTAC
AATTCAACAACAAAAGAATCGCGATGGACTGCACCTCCAGAGTTTTTAGAAGTAAAACAA
AAAATTATTTCTGAAAAGTTGATATCTTCTCCATTTACTGGCTCTGATAATATAAGTAAA
ACACCTGGATCAAATGAAAACTCTTCTTCTGCAATGGATCAAGCAATGGCAGCAACTCTT
GCACAATTAGATTCCATTGAAATGCCTGTTTTACCTAAAAAAGAGGAGCCTGCACCGAAA
ACACCAGCGGCAGCAGAAGCAACAGAAGAAGTTACAGTAGTCGAATTTAAAGATAAAAAA
GAAGCCATAGATGCATTTAAGGAGTTTTTAAAAGAGAAAAATGTTCCTGCATGCACATGG
GAACAATGCATTAAAATAATTTCAAAGGATCCAAAATATAACACTTTCAAGAAATTAAAC
GAAAAAAAACAAGCGTTTAATGCGTACAAAACACAAAAGCAAAAGGAAGAGAAAGAAGAA
CAACGTTTAAAAGCAAAACGATCTAAAGAAAATCTCGAAAAATTTTTGATGTCACATGAG
AAAGTAGATTCCACCACTAAATATTATCGATGTGAGGAAATGTTTTCAAATTTGGACGTA
TGGAAAGCTGTTCCTGAACAAGACAGAAGAGACTTGTTTGATGACTGTATTTTTAATTTA
TCTCAGCGTGAAAAAGAAGAAGCTAAAGTGCTTAAAAAAAGAAATATAAAAGTTTTAAGA
AAACTTTTAGAATCAATGGATTCAATCACATACCAAACTACATGGTCAGAAGCTCAAGTA
TTGCTCCTAGAAAATAATGAATTTAAGAGTGATATTTCACTTCTTGGAATGGACAAAGAA
GATGCTTTGGTAGTTTTTGAGGAACATATTCGTGCACTTGAATTGGAAGAAGCTGAAGAA
CGAGAAAATGAGAAGAGACGTCAAAAGAGATTACAACGAAAAAATCGTGATAACTTTTTA
GCTCTCCTTGATTTGCTTCACGAAGACGGAAAATTGACTTCAGTTTCGACTTGGGTTGAG
CTCTATCCAACAATTTCGGCTGATTTAAGATTTTCTGCTATGCTCGGACAATCAGGTTCT
ACTCCACTTGATTTATTTAAGTTTTATATTGATCAATTAAAAGCACACTATCACGAAGAC
AAAAAACTCATAAAAGAAATTCTAAAGGAGAGCAAATTTAATTTTCAAGCCAATACAACA
TTTGAACAGTTTGCAACAATTGTTTGTGATGATCAAAGGTCGAGTTCATTGGATCCAGGA
AATGTGAAATTGACCTATAATTCATTACTTGAAAAAGCAACAATCGCTGAAAAAGAGAAA
CAGAAAGAAGAAAACCGAAGAATCAGGAAAATGGAGAATGAAATTAAAAATTATTGGTTG
AATGCTGGATTAACTTCAACTGATAACTTTGAGAAAGCAAAAGCAACTATCATTGATAAA
ATTGATTATGAGACATATGACGCTGAGTTGAAAATTGAAGATGTATGGAATGATTTTATA
AATGAAACTGAAAATACATGCAGTCATCATCATTCCCGATCAAAAAAATCGAAAAAGAAT
AGAAAACGCAAGAAGCGTTCTCGTTCAATTAGCATTTCATCAATTGAAGATCATTCAATG
GACGAAACACCATCAATAGCAGAAGAACATATGATTGATGAACTTTCCGAAAAGAAGCGC
AAGAAGAAGAAAAAGCATAAACAACGATCTCCAGGGTCAGTTCATTTGAGTAATGAAGAA
TCTGAAAATACTTCACCCAAAAATAACGCAAGTGATGATCAAGCAATGAGTGAATCAGAA
CTTGAATCTAGAAGACTTGAATTGCTAAAACAATTAGAAGAAGATTAA
>g11768.t1 Gene=g11768 Length=675
MATFEWSEHRAPDGRTYYYNNVTKESRWDKPDVLKSPAERLLSACPWKEYTSDSGKLYYY
NSTTKESRWTAPPEFLEVKQKIISEKLISSPFTGSDNISKTPGSNENSSSAMDQAMAATL
AQLDSIEMPVLPKKEEPAPKTPAAAEATEEVTVVEFKDKKEAIDAFKEFLKEKNVPACTW
EQCIKIISKDPKYNTFKKLNEKKQAFNAYKTQKQKEEKEEQRLKAKRSKENLEKFLMSHE
KVDSTTKYYRCEEMFSNLDVWKAVPEQDRRDLFDDCIFNLSQREKEEAKVLKKRNIKVLR
KLLESMDSITYQTTWSEAQVLLLENNEFKSDISLLGMDKEDALVVFEEHIRALELEEAEE
RENEKRRQKRLQRKNRDNFLALLDLLHEDGKLTSVSTWVELYPTISADLRFSAMLGQSGS
TPLDLFKFYIDQLKAHYHEDKKLIKEILKESKFNFQANTTFEQFATIVCDDQRSSSLDPG
NVKLTYNSLLEKATIAEKEKQKEENRRIRKMENEIKNYWLNAGLTSTDNFEKAKATIIDK
IDYETYDAELKIEDVWNDFINETENTCSHHHSRSKKSKKNRKRKKRSRSISISSIEDHSM
DETPSIAEEHMIDELSEKKRKKKKKHKQRSPGSVHLSNEESENTSPKNNASDDQAMSESE
LESRRLELLKQLEED
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 25 | g11768.t1 | CDD | cd00201 | WW | 6 | 32 | 6.8447E-10 |
| 24 | g11768.t1 | CDD | cd00201 | WW | 45 | 74 | 6.28903E-8 |
| 23 | g11768.t1 | Coils | Coil | Coil | 199 | 235 | - |
| 22 | g11768.t1 | Coils | Coil | Coil | 355 | 375 | - |
| 21 | g11768.t1 | Coils | Coil | Coil | 486 | 506 | - |
| 20 | g11768.t1 | Coils | Coil | Coil | 666 | 675 | - |
| 19 | g11768.t1 | Gene3D | G3DSA:2.20.70.10 | - | 4 | 41 | 2.7E-14 |
| 18 | g11768.t1 | Gene3D | G3DSA:2.20.70.10 | - | 42 | 82 | 3.9E-13 |
| 17 | g11768.t1 | Gene3D | G3DSA:1.10.10.440 | - | 146 | 214 | 2.2E-19 |
| 14 | g11768.t1 | Gene3D | G3DSA:1.10.10.440 | - | 215 | 285 | 3.3E-10 |
| 16 | g11768.t1 | Gene3D | G3DSA:1.10.10.440 | - | 286 | 360 | 2.3E-8 |
| 15 | g11768.t1 | Gene3D | G3DSA:1.10.10.440 | - | 361 | 444 | 1.2E-13 |
| 36 | g11768.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 565 | 675 | - |
| 35 | g11768.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 571 | 588 | - |
| 34 | g11768.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 601 | 618 | - |
| 33 | g11768.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 634 | 656 | - |
| 32 | g11768.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 657 | 675 | - |
| 6 | g11768.t1 | PANTHER | PTHR11864 | PRE-MRNA-PROCESSING PROTEIN PRP40 | 6 | 646 | 9.8E-184 |
| 7 | g11768.t1 | PANTHER | PTHR11864:SF1 | PRE-MRNA-PROCESSING FACTOR 40 HOMOLOG B | 6 | 646 | 9.8E-184 |
| 5 | g11768.t1 | Pfam | PF00397 | WW domain | 5 | 31 | 1.1E-8 |
| 4 | g11768.t1 | Pfam | PF00397 | WW domain | 46 | 72 | 2.0E-8 |
| 3 | g11768.t1 | Pfam | PF01846 | FF domain | 161 | 209 | 7.9E-9 |
| 2 | g11768.t1 | Pfam | PF01846 | FF domain | 299 | 349 | 1.2E-5 |
| 1 | g11768.t1 | Pfam | PF01846 | FF domain | 374 | 429 | 8.7E-9 |
| 31 | g11768.t1 | ProSitePatterns | PS01159 | WW/rsp5/WWP domain signature. | 6 | 31 | - |
| 43 | g11768.t1 | ProSiteProfiles | PS50020 | WW/rsp5/WWP domain profile. | 6 | 33 | 13.536 |
| 44 | g11768.t1 | ProSiteProfiles | PS50020 | WW/rsp5/WWP domain profile. | 46 | 74 | 12.689 |
| 41 | g11768.t1 | ProSiteProfiles | PS51676 | FF domain profile. | 159 | 212 | 10.222 |
| 39 | g11768.t1 | ProSiteProfiles | PS51676 | FF domain profile. | 224 | 279 | 8.284 |
| 42 | g11768.t1 | ProSiteProfiles | PS51676 | FF domain profile. | 292 | 352 | 10.272 |
| 40 | g11768.t1 | ProSiteProfiles | PS51676 | FF domain profile. | 372 | 432 | 10.867 |
| 38 | g11768.t1 | ProSiteProfiles | PS51676 | FF domain profile. | 437 | 492 | 8.604 |
| 37 | g11768.t1 | ProSiteProfiles | PS51676 | FF domain profile. | 507 | 562 | 6.923 |
| 30 | g11768.t1 | SMART | SM00456 | ww_5 | 5 | 33 | 8.7E-6 |
| 29 | g11768.t1 | SMART | SM00456 | ww_5 | 42 | 74 | 1.7E-7 |
| 27 | g11768.t1 | SMART | SM00441 | FF_2 | 159 | 212 | 1.3E-8 |
| 28 | g11768.t1 | SMART | SM00441 | FF_2 | 292 | 352 | 2.5E-7 |
| 26 | g11768.t1 | SMART | SM00441 | FF_2 | 372 | 432 | 0.016 |
| 8 | g11768.t1 | SUPERFAMILY | SSF51045 | WW domain | 6 | 39 | 2.37E-10 |
| 9 | g11768.t1 | SUPERFAMILY | SSF51045 | WW domain | 46 | 79 | 1.07E-9 |
| 13 | g11768.t1 | SUPERFAMILY | SSF81698 | FF domain | 155 | 212 | 2.22E-12 |
| 11 | g11768.t1 | SUPERFAMILY | SSF81698 | FF domain | 217 | 286 | 8.63E-8 |
| 10 | g11768.t1 | SUPERFAMILY | SSF81698 | FF domain | 284 | 357 | 1.31E-10 |
| 12 | g11768.t1 | SUPERFAMILY | SSF81698 | FF domain | 364 | 438 | 5.49E-12 |
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 |
| GO:0045292 | mRNA cis splicing, via spliceosome | BP |
KEGG
Orthology
- This transcript has been annotated with K12821 (pre-mRNA-processing factor 40)
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.
