Gene loci information

Transcript annotation

  • This transcript has been annotated as Tyrosine-protein kinase Src64B.

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 g11448 g11448.t2 TSS g11448.t2 16317197 16317197
chr_1 g11448 g11448.t2 isoform g11448.t2 16317507 16319407
chr_1 g11448 g11448.t2 exon g11448.t2.exon1 16317507 16317528
chr_1 g11448 g11448.t2 cds g11448.t2.CDS1 16317507 16317528
chr_1 g11448 g11448.t2 exon g11448.t2.exon2 16317596 16317723
chr_1 g11448 g11448.t2 cds g11448.t2.CDS2 16317596 16317723
chr_1 g11448 g11448.t2 exon g11448.t2.exon3 16317805 16317878
chr_1 g11448 g11448.t2 cds g11448.t2.CDS3 16317805 16317878
chr_1 g11448 g11448.t2 exon g11448.t2.exon4 16317946 16318203
chr_1 g11448 g11448.t2 cds g11448.t2.CDS4 16317946 16318203
chr_1 g11448 g11448.t2 exon g11448.t2.exon5 16318261 16318714
chr_1 g11448 g11448.t2 cds g11448.t2.CDS5 16318261 16318714
chr_1 g11448 g11448.t2 exon g11448.t2.exon6 16318776 16318838
chr_1 g11448 g11448.t2 cds g11448.t2.CDS6 16318776 16318838
chr_1 g11448 g11448.t2 exon g11448.t2.exon7 16318889 16318953
chr_1 g11448 g11448.t2 cds g11448.t2.CDS7 16318889 16318953
chr_1 g11448 g11448.t2 exon g11448.t2.exon8 16319005 16319073
chr_1 g11448 g11448.t2 cds g11448.t2.CDS8 16319005 16319073
chr_1 g11448 g11448.t2 exon g11448.t2.exon9 16319140 16319407
chr_1 g11448 g11448.t2 cds g11448.t2.CDS9 16319140 16319407
chr_1 g11448 g11448.t2 TTS g11448.t2 16319618 16319618

Sequences

>g11448.t2 Gene=g11448 Length=1401
ATGGGTTGCTGTTGTAGTGTTAATGAAAGGAGCAAAATCGTTATAGGGTTGTTTGATTAT
AAAGCTCAAGAAACTATTGATATTTCTTTTAAAAAGGGAGATCGAATGCAAGTAATTGAT
GAATCAGAATTAGATTGGTGGAGAGTTAAGAATCTAGAAACTAAAGCAAGAGGCTTGATT
CCAAAGAACTATGTAGCAGAAGAAGGAACTATTTATTGCGAAGATTGGTTCTTTGATAAT
ATTTCTCGAAAAGAAGCTGAAAATTTATTATTGGCAAGAGAAAATACTAAAGGAACATTT
TTAATTAGACCATCTGAACAATTCAACAACAGATTTTCTCTTAGTGTTAAAGATTTTGAT
AGATCTAGAGGATATCATGTGAAGCACTATAAAATTAAACCGAAAGAGAATGGTCATTAC
TACATTGCATCAACACAAACCTTTCCAGATTTAGCATCATTAGTCGCTGCTTATTCGAGA
AACACAATGGGTCTCACACATATTTTAAGAAACCCTTGTCCCAAAATACCTCCCATACTA
TATGATCTATCACCATCAATGAGAGACGGATGGGAAATAGATAGAAATGAAATAAGATTA
GTTAAAAAACTCGGAGAAGGCAATTTTGGTGAAGTTTATTATGGAAAATGGAAGAATGGA
ACTGAAGTGGCTATTAAAACTTTGAGACAGGGCACAATGTCAACACAAGCTTTTCTTCAA
GAAGCTGCCATAATGAAAAAATTCCGTCATAATAGACTAGTCGCACTATATGCTGTATGT
TCGAAAGAAGAACCAATATACATTGTTCAAGAATATATGTGTAAGGGAAGTTTACTTGAC
TTTCTTCATAGCAGTGATGGTAGAAGACTTAGAAACGAAGAACTTGTGTATATTGCAGCA
CAAGTTGCATCTGGCATGGATTATTTAGAAAAGAAACAATTAGTTCATAGAGATCTGGCT
GCGAGAAATGTGCTAGTCGGGAGAAATCTTATAGCAAAGGTGTCCGATTTTGGTCTGGCT
AGGGTCATTAATGATGAAGCATATTTCGCAACACAAGGATCAAGATTTCCATACAAGTGG
ACATCTGTAGAAGGAATTATGTATGGGAGATTTACTATTAAATCTGACGTATGGTCTTAT
GGAATACTTTTGATGGAACTTTTCACATACGGTAGAGTGCCATATCCCGGTATGTCAAAC
GATGAAGTGGCTGAAAAGGTTGAACGTGGATATAGAATGCCACGACCAAATAGACCTGAA
GTAGCTTTAGAAATATACGAAATAATGCTCCAATGTTGGAATGCACAGGAAGAAAGACGA
CCAACTTTTGAATATTTAAAACATTTCTTTAAAAATTATGGTGTCGCTTCAGAAATGCAA
TATAGAGATCTTGATGAATGA

>g11448.t2 Gene=g11448 Length=466
MGCCCSVNERSKIVIGLFDYKAQETIDISFKKGDRMQVIDESELDWWRVKNLETKARGLI
PKNYVAEEGTIYCEDWFFDNISRKEAENLLLARENTKGTFLIRPSEQFNNRFSLSVKDFD
RSRGYHVKHYKIKPKENGHYYIASTQTFPDLASLVAAYSRNTMGLTHILRNPCPKIPPIL
YDLSPSMRDGWEIDRNEIRLVKKLGEGNFGEVYYGKWKNGTEVAIKTLRQGTMSTQAFLQ
EAAIMKKFRHNRLVALYAVCSKEEPIYIVQEYMCKGSLLDFLHSSDGRRLRNEELVYIAA
QVASGMDYLEKKQLVHRDLAARNVLVGRNLIAKVSDFGLARVINDEAYFATQGSRFPYKW
TSVEGIMYGRFTIKSDVWSYGILLMELFTYGRVPYPGMSNDEVAEKVERGYRMPRPNRPE
VALEIYEIMLQCWNAQEERRPTFEYLKHFFKNYGVASEMQYRDLDE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g11448.t2 CDD cd11845 SH3_Src_like 13 64 5.15309E-19
22 g11448.t2 Gene3D G3DSA:2.30.30.40 SH3 Domains 5 65 1.8E-20
24 g11448.t2 Gene3D G3DSA:3.30.505.10 SHC Adaptor Protein 66 176 1.4E-30
23 g11448.t2 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 191 453 4.3E-89
4 g11448.t2 PANTHER PTHR24418:SF224 TYROSINE-PROTEIN KINASE FGR 12 463 4.1E-171
5 g11448.t2 PANTHER PTHR24418 TYROSINE-PROTEIN KINASE 12 463 4.1E-171
18 g11448.t2 PRINTS PR00452 SH3 domain signature 12 22 1.9E-7
16 g11448.t2 PRINTS PR00452 SH3 domain signature 26 41 1.9E-7
17 g11448.t2 PRINTS PR00452 SH3 domain signature 56 68 1.9E-7
9 g11448.t2 PRINTS PR00401 SH2 domain signature 76 90 2.2E-13
10 g11448.t2 PRINTS PR00401 SH2 domain signature 97 107 2.2E-13
6 g11448.t2 PRINTS PR00401 SH2 domain signature 109 120 2.2E-13
8 g11448.t2 PRINTS PR00401 SH2 domain signature 126 136 2.2E-13
7 g11448.t2 PRINTS PR00401 SH2 domain signature 147 161 2.2E-13
13 g11448.t2 PRINTS PR00109 Tyrosine kinase catalytic domain signature 270 283 9.6E-32
15 g11448.t2 PRINTS PR00109 Tyrosine kinase catalytic domain signature 308 326 9.6E-32
12 g11448.t2 PRINTS PR00109 Tyrosine kinase catalytic domain signature 356 366 9.6E-32
14 g11448.t2 PRINTS PR00109 Tyrosine kinase catalytic domain signature 375 397 9.6E-32
11 g11448.t2 PRINTS PR00109 Tyrosine kinase catalytic domain signature 421 443 9.6E-32
1 g11448.t2 Pfam PF00018 SH3 domain 17 62 5.6E-14
2 g11448.t2 Pfam PF00017 SH2 domain 76 158 4.7E-23
3 g11448.t2 Pfam PF07714 Protein tyrosine and serine/threonine kinase 199 449 5.1E-93
27 g11448.t2 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 204 226 -
26 g11448.t2 ProSitePatterns PS00109 Tyrosine protein kinases specific active-site signature. 314 326 -
31 g11448.t2 ProSiteProfiles PS50002 Src homology 3 (SH3) domain profile. 9 70 24.734
32 g11448.t2 ProSiteProfiles PS50001 Src homology 2 (SH2) domain profile. 76 173 23.588
33 g11448.t2 ProSiteProfiles PS50011 Protein kinase domain profile. 198 451 40.852
29 g11448.t2 SMART SM00326 SH3_2 12 69 1.8E-15
30 g11448.t2 SMART SM00252 SH2_5 74 164 9.1E-29
28 g11448.t2 SMART SM00219 tyrkin_6 198 450 1.5E-133
21 g11448.t2 SUPERFAMILY SSF50044 SH3-domain 12 95 2.1E-17
20 g11448.t2 SUPERFAMILY SSF55550 SH2 domain 73 218 1.28E-35
19 g11448.t2 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 187 452 8.61E-78

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:0005515 protein binding MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation 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