Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative WW domain-containing protein ZK1098.1.

Parent gene

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.t7 TSS g11768.t7 18341300 18341300
chr_1 g11768 g11768.t7 isoform g11768.t7 18341376 18342338
chr_1 g11768 g11768.t7 exon g11768.t7.exon1 18341376 18341492
chr_1 g11768 g11768.t7 cds g11768.t7.CDS1 18341376 18341492
chr_1 g11768 g11768.t7 exon g11768.t7.exon2 18341558 18342338
chr_1 g11768 g11768.t7 cds g11768.t7.CDS2 18341558 18342337
chr_1 g11768 g11768.t7 TTS g11768.t7 18342996 18342996

Sequences

>g11768.t7 Gene=g11768 Length=898
ATGGCCACATTCGAGTGGAGTGAGCATCGAGCACCTGATGGAAGAACTTACTATTATAAT
AATGTAACAAAAGAAAGTCGTTGGGATAAGCCAGATGTTTTAAAATCGCCGGCTGAGCGA
TTATTGTCTGCATGCCCATGGAAGGAATACACATCTGATTCAGGCAAACTTTATTATTAC
AATTCAACAACAAAAGAATCGCGATGGACTGCACCTCCAGAGTTTTTAGAAGTAAAACAA
AAAATTATTTCTGAAAAGTTGATATCTTCTCCATTTACTGGCTCTGATAATATAAGTAAA
ACACCTGGATCAAATGAAAACTCTTCTTCTGCAATGGATCAAGCAATGGCAGCAACTCTT
GCACAATTAGATTCCATTGAAATGCCTGTTTTACCTAAAAAAGAGGAGCCTGCACCGAAA
ACACCAGCGGCAGCAGAAGCAACAGAAGAAGTTACAGTAGTCGAATTTAAAGATAAAAAA
GAAGCCATAGATGCATTTAAGGAGTTTTTAAAAGAGAAAAATGTTCCTGCATGCACATGG
GAACAATGCATTAAAATAATTTCAAAGGATCCAAAATATAACACTTTCAAGAAATTAAAC
GAAAAAAAACAAGCGTTTAATGCGTACAAAACACAAAAGCAAAAGGAAGAGAAAGAAGAA
CAACGTTTAAAAGCAAAACGATCTAAAGAAAATCTCGAAAAATTTTTGATGTCACATGAG
AAAGTAGATTCCACCACTAAATATTATCGATGTGAGGAAATGTTTTCAAATTTGGACGTA
TGGAAAGCTGTTCCTGAACAAGACAGAAGAGACTTGTTTGATGACTGTATTTTTAATTTA
TCTCAGCGTGAAAAAGAAGAAGCTAAAGTGCTTAAAAAAAGAAATATAAAAGTTTTAA

>g11768.t7 Gene=g11768 Length=299
MATFEWSEHRAPDGRTYYYNNVTKESRWDKPDVLKSPAERLLSACPWKEYTSDSGKLYYY
NSTTKESRWTAPPEFLEVKQKIISEKLISSPFTGSDNISKTPGSNENSSSAMDQAMAATL
AQLDSIEMPVLPKKEEPAPKTPAAAEATEEVTVVEFKDKKEAIDAFKEFLKEKNVPACTW
EQCIKIISKDPKYNTFKKLNEKKQAFNAYKTQKQKEEKEEQRLKAKRSKENLEKFLMSHE
KVDSTTKYYRCEEMFSNLDVWKAVPEQDRRDLFDDCIFNLSQREKEEAKVLKKRNIKVL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g11768.t7 CDD cd00201 WW 6 32 1.45613E-9
15 g11768.t7 CDD cd00201 WW 45 74 1.18284E-7
14 g11768.t7 Coils Coil Coil 199 235 -
13 g11768.t7 Gene3D G3DSA:2.20.70.10 - 4 41 9.6E-15
12 g11768.t7 Gene3D G3DSA:2.20.70.10 - 42 82 1.3E-13
11 g11768.t7 Gene3D G3DSA:1.10.10.440 - 146 213 5.8E-20
10 g11768.t7 Gene3D G3DSA:1.10.10.440 - 214 290 9.0E-11
4 g11768.t7 PANTHER PTHR11864 PRE-MRNA-PROCESSING PROTEIN PRP40 6 299 2.5E-82
5 g11768.t7 PANTHER PTHR11864:SF1 PRE-MRNA-PROCESSING FACTOR 40 HOMOLOG B 6 299 2.5E-82
3 g11768.t7 Pfam PF00397 WW domain 5 31 3.9E-9
2 g11768.t7 Pfam PF00397 WW domain 46 72 7.5E-9
1 g11768.t7 Pfam PF01846 FF domain 161 209 2.6E-9
17 g11768.t7 ProSitePatterns PS01159 WW/rsp5/WWP domain signature. 6 31 -
23 g11768.t7 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 6 33 13.536
24 g11768.t7 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 46 74 12.689
22 g11768.t7 ProSiteProfiles PS51676 FF domain profile. 159 212 10.222
21 g11768.t7 ProSiteProfiles PS51676 FF domain profile. 224 279 8.284
20 g11768.t7 SMART SM00456 ww_5 5 33 8.7E-6
19 g11768.t7 SMART SM00456 ww_5 42 74 1.7E-7
18 g11768.t7 SMART SM00441 FF_2 159 212 1.3E-8
6 g11768.t7 SUPERFAMILY SSF51045 WW domain 6 39 7.71E-11
7 g11768.t7 SUPERFAMILY SSF51045 WW domain 46 79 3.56E-10
9 g11768.t7 SUPERFAMILY SSF81698 FF domain 155 212 6.67E-13
8 g11768.t7 SUPERFAMILY SSF81698 FF domain 217 286 3.92E-8

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

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.

Raw TPM values