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.t4 TSS g11448.t4 16317197 16317197
chr_1 g11448 g11448.t4 isoform g11448.t4 16317507 16319407
chr_1 g11448 g11448.t4 exon g11448.t4.exon1 16317507 16317528
chr_1 g11448 g11448.t4 cds g11448.t4.CDS1 16317507 16317528
chr_1 g11448 g11448.t4 exon g11448.t4.exon2 16317596 16317717
chr_1 g11448 g11448.t4 cds g11448.t4.CDS2 16317596 16317717
chr_1 g11448 g11448.t4 exon g11448.t4.exon3 16317805 16317878
chr_1 g11448 g11448.t4 cds g11448.t4.CDS3 16317805 16317878
chr_1 g11448 g11448.t4 exon g11448.t4.exon4 16317946 16318199
chr_1 g11448 g11448.t4 cds g11448.t4.CDS4 16317946 16318199
chr_1 g11448 g11448.t4 exon g11448.t4.exon5 16318257 16318714
chr_1 g11448 g11448.t4 cds g11448.t4.CDS5 16318257 16318714
chr_1 g11448 g11448.t4 exon g11448.t4.exon6 16318776 16318838
chr_1 g11448 g11448.t4 cds g11448.t4.CDS6 16318776 16318838
chr_1 g11448 g11448.t4 exon g11448.t4.exon7 16318889 16318953
chr_1 g11448 g11448.t4 cds g11448.t4.CDS7 16318889 16318953
chr_1 g11448 g11448.t4 exon g11448.t4.exon8 16319005 16319073
chr_1 g11448 g11448.t4 cds g11448.t4.CDS8 16319005 16319073
chr_1 g11448 g11448.t4 exon g11448.t4.exon9 16319140 16319407
chr_1 g11448 g11448.t4 cds g11448.t4.CDS9 16319140 16319407
chr_1 g11448 g11448.t4 TTS g11448.t4 16319618 16319618

Sequences

>g11448.t4 Gene=g11448 Length=1395
ATGGGTTGCTGTTGTAGTGTTAATGAAAGGAGCAAAATCGTTATAGGGTTGTTTGATTAT
AAAGCTCAAGAAACTATTGATATTTCTTTTAAAAAGGGAGATCGAATGCAAGTAATTGAT
GAATCAGAATTAGATTGGTGGAGAAATCTAGAAACTAAAGCAAGAGGCTTGATTCCAAAG
AACTATGTAGCAGAAGAAGGAACTATTTATTGCGAAGATTGGTTCTTTGATAATATTTCT
CGAAAAGAAGCTGAAAATTTATTATTGGCAAGAGAAAATACTAAAGGAACATTTTTAATT
AGACCATCTGAACAATTCAACAACAGATTTTCTCTTAGTGTTAAAGATTTTGATAGATCT
AGAGGATATCATGTGAAGCACTATAAAATTAAACCGAAAGAGAATGGTCATTACTACATT
GCATCAACACAAACCTTTCCAGATTTAGCATCATTAGTCGCTGCTTATTCGAGAAGCACA
ATGGGTCTCACACATATTTTAAGAAACCCTTGTCCCAAAATACCTCCCATACTATATGAT
CTATCACCATCAATGAGAGACGGATGGGAAATAGATAGAAATGAAATAAGATTAGTTAAA
AAACTCGGAGAAGGCAATTTTGGTGAAGTTTATTATGGAAAATGGAAGAATGGAACTGAA
GTGGCTATTAAAACTTTGAGACAGGGCACAATGTCAACACAAGCTTTTCTTCAAGAAGCT
GCCATAATGAAAAAATTCCGTCATAATAGACTAGTCGCACTATATGCTGTATGTTCGAAA
GAAGAACCAATATACATTGTTCAAGAATATATGTGTAAGGGAAGTTTACTTGACTTTCTT
CATAGCAGTGATGGTAGAAGACTTAGAAACGAAGAACTTGTGTATATTGCAGCACAAGTT
GCATCTGGCATGGATTATTTAGAAAAGAAACAATTAGTTCATAGAGATCTGGCTGCGAGA
AATGTGCTAGTCGGGAGAAATCTTATAGCAAAGGTGTCCGATTTTGGTCTGGCTAGGGTC
ATTAATGATGAAGCATATTTCGCAACACAAGGATCAAGATTTCCATACAAGTGGACATCT
GTAGAAGGAATTATGTATGGGAGATTTACTATTAAATCTGACGTATGGTCTTATGGAATA
CTTTTGATGGAACTTTTCACATACGGTAGAGTGCCATATCCCGGTATGTCAAACGATGAA
GTGGCTGAAAAGGTTGAACGTGGATATAGAATGCCACGACCAAATAGACCTGAAGTAGCT
TTAGAAATATACGAAATAATGCTCCAATGTTGGAATGCACAGGAAGAAAGACGACCAACT
TTTGAATATTTAAAACATTTCTTTAAAAATTATGGTGTCGCTTCAGAAATGCAATATAGA
GATCTTGATGAATGA

>g11448.t4 Gene=g11448 Length=464
MGCCCSVNERSKIVIGLFDYKAQETIDISFKKGDRMQVIDESELDWWRNLETKARGLIPK
NYVAEEGTIYCEDWFFDNISRKEAENLLLARENTKGTFLIRPSEQFNNRFSLSVKDFDRS
RGYHVKHYKIKPKENGHYYIASTQTFPDLASLVAAYSRSTMGLTHILRNPCPKIPPILYD
LSPSMRDGWEIDRNEIRLVKKLGEGNFGEVYYGKWKNGTEVAIKTLRQGTMSTQAFLQEA
AIMKKFRHNRLVALYAVCSKEEPIYIVQEYMCKGSLLDFLHSSDGRRLRNEELVYIAAQV
ASGMDYLEKKQLVHRDLAARNVLVGRNLIAKVSDFGLARVINDEAYFATQGSRFPYKWTS
VEGIMYGRFTIKSDVWSYGILLMELFTYGRVPYPGMSNDEVAEKVERGYRMPRPNRPEVA
LEIYEIMLQCWNAQEERRPTFEYLKHFFKNYGVASEMQYRDLDE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g11448.t4 CDD cd11845 SH3_Src_like 13 62 4.72214E-17
22 g11448.t4 Gene3D G3DSA:2.30.30.40 SH3 Domains 5 62 7.1E-18
24 g11448.t4 Gene3D G3DSA:3.30.505.10 SHC Adaptor Protein 63 185 3.5E-30
23 g11448.t4 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 189 451 4.3E-89
4 g11448.t4 PANTHER PTHR24418:SF224 TYROSINE-PROTEIN KINASE FGR 12 461 2.3E-169
5 g11448.t4 PANTHER PTHR24418 TYROSINE-PROTEIN KINASE 12 461 2.3E-169
18 g11448.t4 PRINTS PR00452 SH3 domain signature 12 22 1.9E-7
17 g11448.t4 PRINTS PR00452 SH3 domain signature 26 41 1.9E-7
16 g11448.t4 PRINTS PR00452 SH3 domain signature 54 66 1.9E-7
6 g11448.t4 PRINTS PR00401 SH2 domain signature 74 88 3.2E-13
10 g11448.t4 PRINTS PR00401 SH2 domain signature 95 105 3.2E-13
8 g11448.t4 PRINTS PR00401 SH2 domain signature 107 118 3.2E-13
7 g11448.t4 PRINTS PR00401 SH2 domain signature 124 134 3.2E-13
9 g11448.t4 PRINTS PR00401 SH2 domain signature 145 159 3.2E-13
14 g11448.t4 PRINTS PR00109 Tyrosine kinase catalytic domain signature 268 281 9.4E-32
13 g11448.t4 PRINTS PR00109 Tyrosine kinase catalytic domain signature 306 324 9.4E-32
12 g11448.t4 PRINTS PR00109 Tyrosine kinase catalytic domain signature 354 364 9.4E-32
15 g11448.t4 PRINTS PR00109 Tyrosine kinase catalytic domain signature 373 395 9.4E-32
11 g11448.t4 PRINTS PR00109 Tyrosine kinase catalytic domain signature 419 441 9.4E-32
1 g11448.t4 Pfam PF00018 SH3 domain 17 60 5.2E-11
2 g11448.t4 Pfam PF00017 SH2 domain 74 156 4.6E-23
3 g11448.t4 Pfam PF07714 Protein tyrosine and serine/threonine kinase 197 447 5.0E-93
27 g11448.t4 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 202 224 -
26 g11448.t4 ProSitePatterns PS00109 Tyrosine protein kinases specific active-site signature. 312 324 -
31 g11448.t4 ProSiteProfiles PS50002 Src homology 3 (SH3) domain profile. 9 68 17.866
32 g11448.t4 ProSiteProfiles PS50001 Src homology 2 (SH2) domain profile. 74 171 23.47
33 g11448.t4 ProSiteProfiles PS50011 Protein kinase domain profile. 196 449 40.852
29 g11448.t4 SMART SM00326 SH3_2 12 67 3.6E-10
30 g11448.t4 SMART SM00252 SH2_5 72 162 7.3E-28
28 g11448.t4 SMART SM00219 tyrkin_6 196 448 1.5E-133
21 g11448.t4 SUPERFAMILY SSF50044 SH3-domain 12 93 4.99E-15
20 g11448.t4 SUPERFAMILY SSF55550 SH2 domain 71 216 3.77E-35
19 g11448.t4 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 185 450 8.47E-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