Gene loci information

Transcript annotation

  • This transcript has been annotated as Tyrosine-protein kinase Shark.

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_2 g6266 g6266.t1 isoform g6266.t1 15747955 15750317
chr_2 g6266 g6266.t1 exon g6266.t1.exon1 15747955 15747958
chr_2 g6266 g6266.t1 cds g6266.t1.CDS1 15747955 15747958
chr_2 g6266 g6266.t1 exon g6266.t1.exon2 15748026 15748120
chr_2 g6266 g6266.t1 cds g6266.t1.CDS2 15748026 15748120
chr_2 g6266 g6266.t1 exon g6266.t1.exon3 15748701 15749908
chr_2 g6266 g6266.t1 cds g6266.t1.CDS3 15748701 15749908
chr_2 g6266 g6266.t1 exon g6266.t1.exon4 15749978 15750157
chr_2 g6266 g6266.t1 cds g6266.t1.CDS4 15749978 15750157
chr_2 g6266 g6266.t1 exon g6266.t1.exon5 15750242 15750317
chr_2 g6266 g6266.t1 cds g6266.t1.CDS5 15750242 15750317
chr_2 g6266 g6266.t1 TSS g6266.t1 15750482 15750482
chr_2 g6266 g6266.t1 TTS g6266.t1 NA NA

Sequences

>g6266.t1 Gene=g6266 Length=1563
ATGAGTCGAGATGAAAGTCTAGACTGGTTTCATGGTAGAATTTCGCGATTAGAGGCAGAG
AAAATTCTTCTTGAAGAATCTCAAAAACTTGATATCACCGACAGTATTTTTCTTGTTCGT
GAAAGTTCAACATTGGTTAATAACTATGTAGTATCCGTTATATATCGAAATGAATTTTTT
CATTATCAAATACAAAGACATGGAGATGATTCATTCTTCTCCATTGACTCTCAATTCATT
CATCACGGATTGGACGACTTGATTGAGTATTATAAGCACAATGAATCGAATCTCTGTACA
AAATTAGGAAAGTTTGTAAAAAAAGGTCCACCGCCATTAAAATATTGCAAATTAGGAAAA
GCAAATTTGCTTCATCGTGCTACAAAGCATAACAATTTAAATGTTGTCAAAGAAATTTTA
TCGACATCATATCGAAATTTAGATGCAAAAAATGAAAATGGAATGACAGCAGTTCGTTTA
GCTGCAATAAATAAAATTAGTGCTGAAATTATGAAATTGCTCATAGAAAATGGAAGTGCC
TTAGCAAGTAGAGACTCAGTTGGAAATACACCACTGCATTATGCATGCAAATTTGAATGC
AAAGAAATGGTTGAACTTTTAATTGATGCAAGTAAAACATTGATTTATGCTAGAAACACT
TTTACACACGAAGTGCCATTACATGAAGCTGCCAAAGTTGGAAATCTTGAAATTGTCAAA
ATTTTACTACAAAATAATGCAGCAAGTATGCCAAGAGCTAATAATGGAAAACTTCCAATC
AATTATGCAAGAGAGAAAGGGCATTATGATGTTGTTGAATATTTGGAAAAATATGTGCCA
GTTTGTAATACATTTAGCCATAAGTGGCATCATGGAACATTAGATAGAGAAGGGGCAAGA
ACTTTGTTATTGAAGAAAAGAAATGAACTTTATGAAAAATATCGTGAAGAATATGCATTG
GAAGAGAATGTCTATGTTAATGATAATAAAGAAATTAATGATTTAATTTGTGGATTGTTC
TTGGTAAGAACAAGTGAAAGAAATGGTGGATTAGATGTCATAACTATGCTTCATGATGAC
GATGACCTAAAAAATATTAGAAATTATGTAATTCATAAATCTGACAATTTAAAATATTTT
TATATCGATGATGGACCATTTTTCACTTCATTAGAACATCTTATAAGCTATTACATGACT
CATGCTGATGGGCTTCCAGCTAAATTAACACAATTTGTGTCTCCAATCGTTCGTCCACCA
ATTCCAACTTTAACTCTACAGAAAAAGTCAAAATCTATGGTACAATCTCCAGCTGCTAGT
ACAAATTCAGTGTCATCACCTGAAAGTGCTAACAATTCAATAACAATGGAGTCTCAAACA
AAAGCAAAATCATCAGTTTTCACTTTATTCAAGAAAAAAAAGCATTCCCTTCCAACTTCA
CTCTCTAAAGAAGACAAACCATCATCACTGCCATTACCAACGCCCACAAGTTATGTTGAG
TTCAACGAATACAAATATAAAACTGAACATGAACATGAAAATAAAAATTTCGAATTTGGA
TAA

>g6266.t1 Gene=g6266 Length=520
MSRDESLDWFHGRISRLEAEKILLEESQKLDITDSIFLVRESSTLVNNYVVSVIYRNEFF
HYQIQRHGDDSFFSIDSQFIHHGLDDLIEYYKHNESNLCTKLGKFVKKGPPPLKYCKLGK
ANLLHRATKHNNLNVVKEILSTSYRNLDAKNENGMTAVRLAAINKISAEIMKLLIENGSA
LASRDSVGNTPLHYACKFECKEMVELLIDASKTLIYARNTFTHEVPLHEAAKVGNLEIVK
ILLQNNAASMPRANNGKLPINYAREKGHYDVVEYLEKYVPVCNTFSHKWHHGTLDREGAR
TLLLKKRNELYEKYREEYALEENVYVNDNKEINDLICGLFLVRTSERNGGLDVITMLHDD
DDLKNIRNYVIHKSDNLKYFYIDDGPFFTSLEHLISYYMTHADGLPAKLTQFVSPIVRPP
IPTLTLQKKSKSMVQSPAASTNSVSSPESANNSITMESQTKAKSSVFTLFKKKKHSLPTS
LSKEDKPSSLPLPTPTSYVEFNEYKYKTEHEHENKNFEFG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g6266.t1 Gene3D G3DSA:3.30.505.10 SHC Adaptor Protein 1 112 7.8E-24
14 g6266.t1 Gene3D G3DSA:1.25.40.20 - 113 276 7.7E-34
15 g6266.t1 Gene3D G3DSA:3.30.505.10 SHC Adaptor Protein 277 414 1.7E-22
25 g6266.t1 MobiDBLite mobidb-lite consensus disorder prediction 427 457 -
24 g6266.t1 MobiDBLite mobidb-lite consensus disorder prediction 475 494 -
5 g6266.t1 PANTHER PTHR24418 TYROSINE-PROTEIN KINASE 3 487 6.4E-43
6 g6266.t1 PANTHER PTHR24418:SF372 TYROSINE-PROTEIN KINASE SHARK 3 487 6.4E-43
10 g6266.t1 PRINTS PR00401 SH2 domain signature 9 23 1.3E-9
9 g6266.t1 PRINTS PR00401 SH2 domain signature 34 44 1.3E-9
7 g6266.t1 PRINTS PR00401 SH2 domain signature 365 375 1.3E-9
8 g6266.t1 PRINTS PR00401 SH2 domain signature 387 401 1.3E-9
1 g6266.t1 Pfam PF00017 SH2 domain 9 91 8.5E-15
3 g6266.t1 Pfam PF12796 Ankyrin repeats (3 copies) 124 210 2.2E-13
4 g6266.t1 Pfam PF12796 Ankyrin repeats (3 copies) 223 275 6.5E-8
2 g6266.t1 Pfam PF00017 SH2 domain 338 398 9.4E-8
30 g6266.t1 ProSiteProfiles PS50001 Src homology 2 (SH2) domain profile. 9 106 18.991
26 g6266.t1 ProSiteProfiles PS50297 Ankyrin repeat region circular profile. 119 275 33.129
29 g6266.t1 ProSiteProfiles PS50088 Ankyrin repeat profile. 153 186 9.137
27 g6266.t1 ProSiteProfiles PS50088 Ankyrin repeat profile. 187 219 8.656
28 g6266.t1 ProSiteProfiles PS50088 Ankyrin repeat profile. 222 247 9.805
31 g6266.t1 ProSiteProfiles PS50001 Src homology 2 (SH2) domain profile. 289 416 16.93
23 g6266.t1 SMART SM00252 SH2_5 7 97 1.3E-18
20 g6266.t1 SMART SM00248 ANK_2a 119 149 9.9
17 g6266.t1 SMART SM00248 ANK_2a 153 183 5.6
19 g6266.t1 SMART SM00248 ANK_2a 187 217 0.014
21 g6266.t1 SMART SM00248 ANK_2a 222 252 0.06
18 g6266.t1 SMART SM00248 ANK_2a 255 284 57.0
22 g6266.t1 SMART SM00252 SH2_5 287 404 6.6E-13
13 g6266.t1 SUPERFAMILY SSF55550 SH2 domain 6 108 5.39E-24
11 g6266.t1 SUPERFAMILY SSF48403 Ankyrin repeat 119 277 3.38E-33
12 g6266.t1 SUPERFAMILY SSF55550 SH2 domain 279 414 1.03E-17

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

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