Gene loci information

Transcript annotation

  • This transcript has been annotated as Tyrosine kinase receptor Cad96Ca.

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
HiC_scaffold_385 g17833 g17833.t1 isoform g17833.t1 24429 25798
HiC_scaffold_385 g17833 g17833.t1 exon g17833.t1.exon1 24429 24473
HiC_scaffold_385 g17833 g17833.t1 cds g17833.t1.CDS1 24429 24473
HiC_scaffold_385 g17833 g17833.t1 exon g17833.t1.exon2 24531 24670
HiC_scaffold_385 g17833 g17833.t1 cds g17833.t1.CDS2 24531 24670
HiC_scaffold_385 g17833 g17833.t1 exon g17833.t1.exon3 24917 24974
HiC_scaffold_385 g17833 g17833.t1 cds g17833.t1.CDS3 24917 24974
HiC_scaffold_385 g17833 g17833.t1 exon g17833.t1.exon4 25487 25798
HiC_scaffold_385 g17833 g17833.t1 cds g17833.t1.CDS4 25487 25798
HiC_scaffold_385 g17833 g17833.t1 TTS g17833.t1 25854 25854
HiC_scaffold_385 g17833 g17833.t1 TSS g17833.t1 NA NA

Sequences

>g17833.t1 Gene=g17833 Length=555
ATGTATCAAGTTGCAAGAGGCATGGAATTTCTTACATCAAGAGGAATCATTCATCGTGAT
TTAGCAGCTAGAAATATTTTAATTACAGAAGATTACACGTGTAAAATTGCAGATTTTGGC
TTTGCACGTGATATTGAAACTTCAACTGTATATGAAAGAAAAACTGGTGGCCGGCAGCCA
ATTAGATGGATGGCCATTGAATCACTTTATGACAATATTTTCTCAGTCAAGTCTGATGTT
TGGGCATTTGGAATTCTCATGTGGGAAATAGCAACACTCGGTTCGACTCCATATCCTGGA
ATGGGAGCTGCAGATGTGATGAAAAAAGTTCGTGATGGTTATAGACTTGAAAAACCAGAA
CATACAAGTCGAGAAATTTATAATTATATGTACTACTGCTGGGATGCAGATCCAAAAAAT
CGACCAGACTTCTCAGAGATTAGAATCAATTTAGATAAACTTCTTTCAACCTCAACTGAT
TATATTGAGCTTGAAAGATTTCCCGAACATGATTATTATAATATTCTACACAATATTAGT
GGAGAAAAACTGTAG

>g17833.t1 Gene=g17833 Length=184
MYQVARGMEFLTSRGIIHRDLAARNILITEDYTCKIADFGFARDIETSTVYERKTGGRQP
IRWMAIESLYDNIFSVKSDVWAFGILMWEIATLGSTPYPGMGAADVMKKVRDGYRLEKPE
HTSREIYNYMYYCWDADPKNRPDFSEIRINLDKLLSTSTDYIELERFPEHDYYNILHNIS
GEKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g17833.t1 CDD cd00192 PTKc 1 148 1.31858E-90
9 g17833.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 1 182 2.1E-55
2 g17833.t1 PANTHER PTHR24416:SF537 TYROSINE KINASE RECEPTOR CAD96CA 1 184 7.0E-105
3 g17833.t1 PANTHER PTHR24416 TYROSINE-PROTEIN KINASE RECEPTOR 1 184 7.0E-105
6 g17833.t1 PRINTS PR00109 Tyrosine kinase catalytic domain signature 10 28 2.6E-26
7 g17833.t1 PRINTS PR00109 Tyrosine kinase catalytic domain signature 59 69 2.6E-26
5 g17833.t1 PRINTS PR00109 Tyrosine kinase catalytic domain signature 78 100 2.6E-26
4 g17833.t1 PRINTS PR00109 Tyrosine kinase catalytic domain signature 122 144 2.6E-26
1 g17833.t1 Pfam PF07714 Protein tyrosine and serine/threonine kinase 2 149 9.3E-63
11 g17833.t1 ProSitePatterns PS00109 Tyrosine protein kinases specific active-site signature. 16 28 -
13 g17833.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 1 173 27.142
12 g17833.t1 SMART SM00219 tyrkin_6 1 151 3.4E-36
8 g17833.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 1 168 3.59E-52

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:0004713 protein tyrosine kinase activity MF
GO:0005524 ATP binding MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP

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.

Raw TPM values