General information for g17821.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Tyrosine-protein kinase Shark.
Parent gene
- The parent gene g17821 is located on HiC_scaffold_384: 114..3301 (- 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 |
|---|---|---|---|---|---|---|
| HiC_scaffold_384 | g17821 | g17821.t3 | isoform | g17821.t3 | 504 | 3301 |
| HiC_scaffold_384 | g17821 | g17821.t3 | exon | g17821.t3.exon1 | 504 | 1110 |
| HiC_scaffold_384 | g17821 | g17821.t3 | cds | g17821.t3.CDS1 | 964 | 1110 |
| HiC_scaffold_384 | g17821 | g17821.t3 | exon | g17821.t3.exon2 | 1166 | 2298 |
| HiC_scaffold_384 | g17821 | g17821.t3 | cds | g17821.t3.CDS2 | 1166 | 2092 |
| HiC_scaffold_384 | g17821 | g17821.t3 | exon | g17821.t3.exon3 | 2368 | 2546 |
| HiC_scaffold_384 | g17821 | g17821.t3 | exon | g17821.t3.exon4 | 2631 | 2721 |
| HiC_scaffold_384 | g17821 | g17821.t3 | exon | g17821.t3.exon5 | 2797 | 3301 |
| HiC_scaffold_384 | g17821 | g17821.t3 | TSS | g17821.t3 | NA | NA |
| HiC_scaffold_384 | g17821 | g17821.t3 | TTS | g17821.t3 | NA | NA |
Sequences
>g17821.t3 Gene=g17821 Length=2515
TTGTATTATTGATTTATTTTAATATTTAATGATATAATAAATTTTGTTTTATAGTAAAAA
TTCAACACGTGCAATCTCAAATTCAAAACAAAAGAAGGGGACTGCAAGAAAAACACGTCA
GTTTGTAATAATATTTTTGTTTTGTTTGAAATTTTTATTATTCTTTTAAACTAGCATATT
TACTCGTGTTTATGCTTCTTTATGTATATATAATGTTAAGATAATGCTCATGAAACTTAA
AAATATTTAAAGCTATTACAACCAACAAAATTGCAAAAAATATTCCACTCTGCAGTTTAC
TTCACTTTACACACTCGAGTGATGAGAGTAAAGTGGAGTTGCCAAAAATACAAACAAATA
TCGATATGCTCTACATAGTATACATTTAACTTGTCTTTACTTTGTTTTAAAATCTTTATT
TTTTTTCTCTTTATTTTTTTAAAGTTAACAAGTGTGTTATTATAAAAACATCAGAATAAA
TATTTTCTCCTCATTACTTTAATGTGTATTATAGCTCAAAATGAGTCGAGATGAAAGTCT
AGACTGGTTTCATGGTAGAATTTCGCGATTAGAGGCAGAGAAAATTCTTCTTGAAGAATC
TCAAAAACTTGATATCTCCGACAGTATTTTTCTTGTTCGTGAAAGTTCAACATTGATTAA
TAACTATGTAAGTATCCGTTATAATCGAAATGAATTTTTTCATTATCAAATACAAAGACA
TGGAGATGATTCATTCTTCTCCATTGACTCTCAATTCATTCATCACGATTGGACGACTTG
ATTGAGTATTATAAGCACAATGAATCGAATCTCTGTACAAAATTAGGAAAGTTTGTAAAG
AAAGGTCCACCACCATTAAAATATTGCAAATTAGGAAAAGCAAATTTGCTTCATCGTGCC
ACAAAGCATAATAATTTAAATGTTGTCAAAGAAATTTTATCGACATCATATCGAAATTTA
GATGCAAAAGATGAAAATGGAATGACAGCAGTTCATTTAGCTGCAATAAATAAAGTCAGT
GCTGAAATTATGAAATTGCTCATGAAAAATGGAAGTGCCTTAGCAAGTAGAGACTCAGTT
GGAAATACACCACTGCATTATGCTTGTAAATTTGAATGCAAAGAAATGGTTGAACTTTTA
ATTGGTGCAAGTAAACCATTGATTTATGCTAGAAACACTTTTACACACGAAGTGCCATTA
CATGAAGCTGCCAAAGTTGGAAATCTTGAAATTGTCAAAATTTTACTGCAAAATAATGCA
GCAAGTATGCCGAGAGCTAATAATGGAAAACTTCCAATCAATTATGCAAGAGAGAAAGGG
CATTATGATGTTGTTGAATATTTGGAAAAATATGTGCCAGTTTGTAATACATTTAGCCAT
AAGTGGCATCATGGAACATTAGATAGAGAAGGGGCAAGAACTTTGTTATTGAAGAAAAGA
AATGAACTTTATGAAAAATATCGTGAAGAATATGCATTGGAAGAGAATGTCTATGTTAAT
GATAATAAAGAAATTAATGATTTAATTTGTGGATTGTTCTTGGTAAGAACAAGTGAAAGA
AATGGTGGATTAGATGTCATAACTATGCTTCATGATGACGATGACCTAAATATTAGAAAT
TATGTAATTCATAAATCTGACAATTTAAAATATTTTTTATACGATGATGGACCATTTTTC
ACTTCATTAGAACATCTTATAAGCTATTACATGACTCATGCTGATGGGCTTCCGGCTAAA
TTAACACAATTTGTGTCTCCAATCGTTCGTCCACCAATTCCAACTTTACAGAAAAAGTCA
AAATCTGTGATGCAATCTCCAGTTGTTAGTACAAATTCAATATCATCACCTGAAAGTGCT
AACAATTCAATGACAATAGAGTCTCAAACAAAAGCAAAATCATCAGTTACAAACCATCAG
TTGATTTGTCAATGGATTCTTTCAATAAATCATTGTCATTTTCAACGAATTTTCTTACAA
ATTATGGCGTTCCTCCGACATCAAAGAGGCCATCAACACAAGAAGATCAATTTACAGAAA
GCGATCAATTTTTGATCAACAATCAGACAGTTCAAGACTCAAAACCACAAGAAATGATTT
ATTTCATGGATCCACCAAAAAGGAATAAAATAGAATGGAATCAACTTGATCCGGAATTGT
ATGAAACGCAAAAGAACTTTTTAAAAGAAATTACTCGAAGTTCTGGTGCAAATTATTATG
TCTCAAAAGATGATCTACATTTTGACAATGAAATTGGTTCAGGAGAATTTGGAAATGTCT
TAAGGGGAATTTTTAAATTATCAAATGGCAAGAAAATTTGGGTTGCAATAAAAACTTTAC
ATGAGAGGCATTATGAAGAAAATCTTCCAGAATTTTTAAAAGAAGCTTCAGTTATGATAA
AATTAGACAATTCCTATGTCGTAAAACTAATTGTTCAAGAGCTCTGTAGTTTTGGATCAC
TCGCTGAATATTTAGTAGAAAACAAAGATGATATCGATTATAAATTAATTGACTT
>g17821.t3 Gene=g17821 Length=357
MTAVHLAAINKVSAEIMKLLMKNGSALASRDSVGNTPLHYACKFECKEMVELLIGASKPL
IYARNTFTHEVPLHEAAKVGNLEIVKILLQNNAASMPRANNGKLPINYAREKGHYDVVEY
LEKYVPVCNTFSHKWHHGTLDREGARTLLLKKRNELYEKYREEYALEENVYVNDNKEIND
LICGLFLVRTSERNGGLDVITMLHDDDDLNIRNYVIHKSDNLKYFLYDDGPFFTSLEHLI
SYYMTHADGLPAKLTQFVSPIVRPPIPTLQKKSKSVMQSPVVSTNSISSPESANNSMTIE
SQTKAKSSVTNHQLICQWILSINHCHFQRIFLQIMAFLRHQRGHQHKKINLQKAINF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g17821.t3 | Gene3D | G3DSA:1.25.40.20 | - | 1 | 123 | 2.4E-27 |
| 12 | g17821.t3 | Gene3D | G3DSA:3.30.505.10 | SHC Adaptor Protein | 124 | 259 | 5.8E-22 |
| 4 | g17821.t3 | PANTHER | PTHR24180 | CYCLIN-DEPENDENT KINASE INHIBITOR 2C-RELATED | 7 | 143 | 9.6E-21 |
| 6 | g17821.t3 | PRINTS | PR00401 | SH2 domain signature | 135 | 149 | 1.7E-7 |
| 5 | g17821.t3 | PRINTS | PR00401 | SH2 domain signature | 183 | 193 | 1.7E-7 |
| 8 | g17821.t3 | PRINTS | PR00401 | SH2 domain signature | 210 | 220 | 1.7E-7 |
| 7 | g17821.t3 | PRINTS | PR00401 | SH2 domain signature | 232 | 246 | 1.7E-7 |
| 2 | g17821.t3 | Pfam | PF12796 | Ankyrin repeats (3 copies) | 1 | 56 | 2.7E-9 |
| 3 | g17821.t3 | Pfam | PF12796 | Ankyrin repeats (3 copies) | 69 | 121 | 4.1E-8 |
| 1 | g17821.t3 | Pfam | PF00017 | SH2 domain | 184 | 243 | 6.8E-8 |
| 14 | g17821.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 14 | - |
| 15 | g17821.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 16 | g17821.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 9 | - |
| 17 | g17821.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 10 | 14 | - |
| 13 | g17821.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 15 | 357 | - |
| 23 | g17821.t3 | ProSiteProfiles | PS50297 | Ankyrin repeat region circular profile. | 1 | 121 | 28.327 |
| 24 | g17821.t3 | ProSiteProfiles | PS50088 | Ankyrin repeat profile. | 1 | 32 | 9.03 |
| 25 | g17821.t3 | ProSiteProfiles | PS50088 | Ankyrin repeat profile. | 68 | 93 | 9.805 |
| 26 | g17821.t3 | ProSiteProfiles | PS50001 | Src homology 2 (SH2) domain profile. | 135 | 261 | 16.944 |
| 20 | g17821.t3 | SMART | SM00248 | ANK_2a | 1 | 29 | 570.0 |
| 18 | g17821.t3 | SMART | SM00248 | ANK_2a | 33 | 63 | 0.055 |
| 21 | g17821.t3 | SMART | SM00248 | ANK_2a | 68 | 98 | 0.06 |
| 19 | g17821.t3 | SMART | SM00248 | ANK_2a | 101 | 130 | 57.0 |
| 22 | g17821.t3 | SMART | SM00252 | SH2_5 | 133 | 249 | 8.7E-12 |
| 9 | g17821.t3 | SUPERFAMILY | SSF48403 | Ankyrin repeat | 1 | 131 | 1.46E-25 |
| 10 | g17821.t3 | SUPERFAMILY | SSF55550 | SH2 domain | 125 | 259 | 2.87E-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.
