Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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
HiC_scaffold_384 g17821 g17821.t4 isoform g17821.t4 1110 2706
HiC_scaffold_384 g17821 g17821.t4 exon g17821.t4.exon1 1110 2298
HiC_scaffold_384 g17821 g17821.t4 cds g17821.t4.CDS1 1112 2092
HiC_scaffold_384 g17821 g17821.t4 exon g17821.t4.exon2 2368 2546
HiC_scaffold_384 g17821 g17821.t4 exon g17821.t4.exon3 2631 2706
HiC_scaffold_384 g17821 g17821.t4 TSS g17821.t4 2801 2801
HiC_scaffold_384 g17821 g17821.t4 TTS g17821.t4 NA NA

Sequences

>g17821.t4 Gene=g17821 Length=1444
ATGAGTCGAGATGAAAGTCTAGACTGGTTTCATGGTAGAATTTCGCGATTAGAGGCAGAG
AAAATTCTTCTTGAAGAATCTCAAAAACTTGATATCTCCGACAGTATTTTTCTTGTTCGT
GAAAGTTCAACATTGATTAATAACTATGTAAGTATCCGTTATAATCGAAATGAATTTTTT
CATTATCAAATACAAAGACATGGAGATGATTCATTCTTCTCCATTGACTCTCAATTCATT
CATCACGATTGGACGACTTGATTGAGTATTATAAGCACAATGAATCGAATCTCTGTACAA
AATTAGGAAAGTTTGTAAAGAAAGGTCCACCACCATTAAAATATTGCAAATTAGGAAAAG
CAAATTTGCTTCATCGTGCCACAAAGCATAATAATTTAAATGTTGTCAAAGAAATTTTAT
CGACATCATATCGAAATTTAGATGCAAAAGATGAAAATGGAATGACAGCAGTTCATTTAG
CTGCAATAAATAAAGTCAGTGCTGAAATTATGAAATTGCTCATGAAAAATGGAAGTGCCT
TAGCAAGTAGAGACTCAGTTGGAAATACACCACTGCATTATGCTTGTAAATTTGAATGCA
AAGAAATGGTTGAACTTTTAATTGGTGCAAGTAAACCATTGATTTATGCTAGAAACACTT
TTACACACGAAGTGCCATTACATGAAGCTGCCAAAGTTGGAAATCTTGAAATTGTCAAAA
TTTTACTGCAAAATAATGCAGCAAGTATGCCGAGAGCTAATAATGGAAAACTTCCAATCA
ATTATGCAAGAGAGAAAGGGCATTATGATGTTGTTGAATATTTGGAAAAATATGTGCCAG
TTTGTAATACATTTAGCCATAAGTGGCATCATGGAACATTAGATAGAGAAGGGGCAAGAA
CTTTGTTATTGAAGAAAAGAAATGAACTTTATGAAAAATATCGTGAAGAATATGCATTGG
AAGAGAATGTCTATGTTAATGATAATAAAGAAATTAATGATTTAATTTGTGGATTGTTCT
TGGTAAGAACAAGTGAAAGAAATGGTGGATTAGATGTCATAACTATGCTTCATGATGACG
ATGACCTAAATATTAGAAATTATGTAATTCATAAATCTGACAATTTAAAATATTTTTTAT
ACGATGATGGACCATTTTTCACTTCATTAGAACATCTTATAAGCTATTACATGACTCATG
CTGATGGGCTTCCGGCTAAATTAACACAATTTGTGTCTCCAATCGTTCGTCCACCAATTC
CAACTTTACAGAAAAAGTCAAAATCTGTGATGCAATCTCCAGTTGTTAGTACAAATTCAA
TATCATCACCTGAAAGTGCTAACAATTCAATGACAATAGAGTCTCAAACAAAAGCAAAAT
CATCAGTTTTCACTTTATTCAAGAAAAAAAAGCATTCCCTTCCAACTTCACTCTCTAAAG
AAGA

>g17821.t4 Gene=g17821 Length=327
MTAVHLAAINKVSAEIMKLLMKNGSALASRDSVGNTPLHYACKFECKEMVELLIGASKPL
IYARNTFTHEVPLHEAAKVGNLEIVKILLQNNAASMPRANNGKLPINYAREKGHYDVVEY
LEKYVPVCNTFSHKWHHGTLDREGARTLLLKKRNELYEKYREEYALEENVYVNDNKEIND
LICGLFLVRTSERNGGLDVITMLHDDDDLNIRNYVIHKSDNLKYFLYDDGPFFTSLEHLI
SYYMTHADGLPAKLTQFVSPIVRPPIPTLQKKSKSVMQSPVVSTNSISSPESANNSMTIE
SQTKAKSSVFTLFKKKKHSLPTSLSKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g17821.t4 Gene3D G3DSA:1.25.40.20 - 1 123 2.0E-27
13 g17821.t4 Gene3D G3DSA:3.30.505.10 SHC Adaptor Protein 124 259 4.8E-22
4 g17821.t4 PANTHER PTHR24189 MYOTROPHIN 1 122 1.0E-21
5 g17821.t4 PANTHER PTHR24189 MYOTROPHIN 72 121 1.0E-21
7 g17821.t4 PRINTS PR00401 SH2 domain signature 135 149 1.2E-7
6 g17821.t4 PRINTS PR00401 SH2 domain signature 183 193 1.2E-7
9 g17821.t4 PRINTS PR00401 SH2 domain signature 210 220 1.2E-7
8 g17821.t4 PRINTS PR00401 SH2 domain signature 232 246 1.2E-7
2 g17821.t4 Pfam PF12796 Ankyrin repeats (3 copies) 1 56 2.4E-9
3 g17821.t4 Pfam PF12796 Ankyrin repeats (3 copies) 69 121 3.6E-8
1 g17821.t4 Pfam PF00017 SH2 domain 184 243 5.8E-8
15 g17821.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 14 -
16 g17821.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
17 g17821.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 9 -
18 g17821.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 10 14 -
14 g17821.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 15 327 -
24 g17821.t4 ProSiteProfiles PS50297 Ankyrin repeat region circular profile. 1 121 28.327
25 g17821.t4 ProSiteProfiles PS50088 Ankyrin repeat profile. 1 32 9.03
26 g17821.t4 ProSiteProfiles PS50088 Ankyrin repeat profile. 68 93 9.805
27 g17821.t4 ProSiteProfiles PS50001 Src homology 2 (SH2) domain profile. 135 261 16.944
21 g17821.t4 SMART SM00248 ANK_2a 1 29 570.0
19 g17821.t4 SMART SM00248 ANK_2a 33 63 0.055
22 g17821.t4 SMART SM00248 ANK_2a 68 98 0.06
20 g17821.t4 SMART SM00248 ANK_2a 101 130 57.0
23 g17821.t4 SMART SM00252 SH2_5 133 249 8.7E-12
10 g17821.t4 SUPERFAMILY SSF48403 Ankyrin repeat 1 131 1.49E-25
11 g17821.t4 SUPERFAMILY SSF55550 SH2 domain 125 259 2.37E-18

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