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 g11447 g11447.t1 TSS g11447.t1 16311099 16311099
chr_1 g11447 g11447.t1 isoform g11447.t1 16311602 16313887
chr_1 g11447 g11447.t1 exon g11447.t1.exon1 16311602 16311821
chr_1 g11447 g11447.t1 cds g11447.t1.CDS1 16311602 16311821
chr_1 g11447 g11447.t1 exon g11447.t1.exon2 16311959 16312095
chr_1 g11447 g11447.t1 cds g11447.t1.CDS2 16311959 16312095
chr_1 g11447 g11447.t1 exon g11447.t1.exon3 16312151 16312224
chr_1 g11447 g11447.t1 cds g11447.t1.CDS3 16312151 16312224
chr_1 g11447 g11447.t1 exon g11447.t1.exon4 16312298 16312417
chr_1 g11447 g11447.t1 cds g11447.t1.CDS4 16312298 16312417
chr_1 g11447 g11447.t1 exon g11447.t1.exon5 16312473 16312606
chr_1 g11447 g11447.t1 cds g11447.t1.CDS5 16312473 16312606
chr_1 g11447 g11447.t1 exon g11447.t1.exon6 16312665 16313122
chr_1 g11447 g11447.t1 cds g11447.t1.CDS6 16312665 16313122
chr_1 g11447 g11447.t1 exon g11447.t1.exon7 16313181 16313243
chr_1 g11447 g11447.t1 cds g11447.t1.CDS7 16313181 16313243
chr_1 g11447 g11447.t1 exon g11447.t1.exon8 16313306 16313370
chr_1 g11447 g11447.t1 cds g11447.t1.CDS8 16313306 16313370
chr_1 g11447 g11447.t1 exon g11447.t1.exon9 16313428 16313496
chr_1 g11447 g11447.t1 cds g11447.t1.CDS9 16313428 16313496
chr_1 g11447 g11447.t1 exon g11447.t1.exon10 16313563 16313709
chr_1 g11447 g11447.t1 cds g11447.t1.CDS10 16313563 16313709
chr_1 g11447 g11447.t1 exon g11447.t1.exon11 16313767 16313887
chr_1 g11447 g11447.t1 cds g11447.t1.CDS11 16313767 16313887
chr_1 g11447 g11447.t1 TTS g11447.t1 NA NA

Sequences

>g11447.t1 Gene=g11447 Length=1608
ATGGGCAATAAATGCTGCTCTAAAAGACAACCCGACGATTTTGCAACTGCAACAGGAGGA
TATAAGAAAAATGAAACAATTTTTATTCAGTCAAATCCTAAAAATAACAGTAATTCGCTC
GAATCCCGTTACACACCAGATCCGAATCGTGGTGGAAGTGGTACAAAACATGCAAAAAGT
GGAATAGATATCATAAGAAGCGGTGGAGCAAGGAGCATAACGCATCCAGTAAGTCATCGC
AGAATCGTTGTTGCTTTATACAACTATAATGCGAGAGAAGATACAGATGTATCGTTTGTC
AAGGGTGATCGTATGGAAGTACTCGATGACACTGAATCCGATTGGTGGCGAGTTATCCAT
TTAACCACTCGACAAGAGGGTCTAATTCCATGGAATTTTGTTGCGGAAGAGAGAAGTGTT
AATAGCGAAGATTGGTTCTTTGAAAATATTTCTCGAAAAGAAGCTGATAAACTCTTGTTG
GCTGAAGAGAATCCACGGGGAACATTTTTAATTCGTCCATCTGAACACAATCCTAATGGA
TTTTCACTAAGTGTGAAAGATTGGGAAGAGACACGTGGATATCATGTTAAGCATTATAAA
ATCAAGCCATTAGATAATGGAGGCTATTTTATTGCAACAAATCAGACATTTGCTAATCTA
CCCTCACTAGTGATGGCTTATTCAAAAAATGCACTTGGTCTGTGTCATGTATTAAGTAGA
CCTTGTCGAAAACAAACACCAACCATTTTCGATCTAGCACCAACATTGAGAGATGAATGG
GAAATAAATCGAAATGAAATTCAATTGATAAGAAAACTTGGTCGTGGAAATTTTGGTGAA
GTTTATTATGGAAAATGGCGAAACAATATTGAAGTGGCTGTTAAAACATTAAGAGAAGGA
ACAATGTCAACACAAGCTTTTCTTCAAGAAGCTGCCATAATGAAAAAATTCCGCCATAAT
AGACTAGTCGCACTATATGCTGTATGTTCGAAAGAAGAACCAATATACATTGTTCAAGAA
TATATGGGCAAAGGAAGTTTACTTGATTTCCTCCGTGAAGGTGATGGACGATACCTTCAA
TTTGAAGACTTAATTTATATAGCATCACAAATAGCATCTGGAATGGAATATTTAGAAACA
AAGCAATTGATTCATCGAGATTTAGCTGCCCGCAATGTTCTTATCGGAGAAAATAATGTA
GCAAAGATATGCGATTTTGGTTTAGCAAGAGTTATCGCTGATGACGAATATTGTCCAAAG
CAGGGTTCAAGGTTCCCAGTCAAATGGACAGCGCCTGAAGCAATCGTGTATGGAAAATTC
TCAATAAAATCTGACGTATGGTCTTATGGTATACTTTTGATGGAACTTTTCACTTATGGT
CAAGTTCCATATCCGGGTATGCATAGTAGAGAAGTAATTGAACAAATTGAAAGAGGTTAC
AGAATGCCAAAACCAACAAATCATCATTTACCTGATACCATCTATAGTCTCATGCTCAAT
TGTTGGGATGCTGTGCCTGACAAGCGACCGACCTTCGAGTTCTTGAATCATTATTTCGAA
AGCTTTAGTGTAACATCTGAGGTTCCTTATAAGGAGGTGCATGATTAA

>g11447.t1 Gene=g11447 Length=535
MGNKCCSKRQPDDFATATGGYKKNETIFIQSNPKNNSNSLESRYTPDPNRGGSGTKHAKS
GIDIIRSGGARSITHPVSHRRIVVALYNYNAREDTDVSFVKGDRMEVLDDTESDWWRVIH
LTTRQEGLIPWNFVAEERSVNSEDWFFENISRKEADKLLLAEENPRGTFLIRPSEHNPNG
FSLSVKDWEETRGYHVKHYKIKPLDNGGYFIATNQTFANLPSLVMAYSKNALGLCHVLSR
PCRKQTPTIFDLAPTLRDEWEINRNEIQLIRKLGRGNFGEVYYGKWRNNIEVAVKTLREG
TMSTQAFLQEAAIMKKFRHNRLVALYAVCSKEEPIYIVQEYMGKGSLLDFLREGDGRYLQ
FEDLIYIASQIASGMEYLETKQLIHRDLAARNVLIGENNVAKICDFGLARVIADDEYCPK
QGSRFPVKWTAPEAIVYGKFSIKSDVWSYGILLMELFTYGQVPYPGMHSREVIEQIERGY
RMPKPTNHHLPDTIYSLMLNCWDAVPDKRPTFEFLNHYFESFSVTSEVPYKEVHD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
27 g11447.t1 CDD cd11845 SH3_Src_like 82 133 7.85782E-22
26 g11447.t1 CDD cd09933 SH2_Src_family 141 241 2.93501E-57
25 g11447.t1 CDD cd05034 PTKc_Src_like 271 520 5.23662E-180
22 g11447.t1 Gene3D G3DSA:2.30.30.40 SH3 Domains 77 135 9.7E-21
24 g11447.t1 Gene3D G3DSA:3.30.505.10 SHC Adaptor Protein 136 245 6.8E-32
23 g11447.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 260 524 5.9E-91
4 g11447.t1 PANTHER PTHR24418:SF224 TYROSINE-PROTEIN KINASE FGR 1 531 4.8E-182
5 g11447.t1 PANTHER PTHR24418 TYROSINE-PROTEIN KINASE 1 531 4.8E-182
18 g11447.t1 PRINTS PR00452 SH3 domain signature 81 91 3.3E-6
16 g11447.t1 PRINTS PR00452 SH3 domain signature 95 110 3.3E-6
17 g11447.t1 PRINTS PR00452 SH3 domain signature 125 137 3.3E-6
8 g11447.t1 PRINTS PR00401 SH2 domain signature 145 159 2.7E-14
9 g11447.t1 PRINTS PR00401 SH2 domain signature 166 176 2.7E-14
6 g11447.t1 PRINTS PR00401 SH2 domain signature 178 189 2.7E-14
10 g11447.t1 PRINTS PR00401 SH2 domain signature 195 205 2.7E-14
7 g11447.t1 PRINTS PR00401 SH2 domain signature 216 230 2.7E-14
12 g11447.t1 PRINTS PR00109 Tyrosine kinase catalytic domain signature 339 352 9.5E-36
14 g11447.t1 PRINTS PR00109 Tyrosine kinase catalytic domain signature 377 395 9.5E-36
11 g11447.t1 PRINTS PR00109 Tyrosine kinase catalytic domain signature 425 435 9.5E-36
15 g11447.t1 PRINTS PR00109 Tyrosine kinase catalytic domain signature 444 466 9.5E-36
13 g11447.t1 PRINTS PR00109 Tyrosine kinase catalytic domain signature 490 512 9.5E-36
1 g11447.t1 Pfam PF00018 SH3 domain 84 130 3.0E-14
2 g11447.t1 Pfam PF00017 SH2 domain 145 227 2.7E-24
3 g11447.t1 Pfam PF07714 Protein tyrosine and serine/threonine kinase 267 517 2.8E-96
29 g11447.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 273 295 -
28 g11447.t1 ProSitePatterns PS00109 Tyrosine protein kinases specific active-site signature. 383 395 -
33 g11447.t1 ProSiteProfiles PS50002 Src homology 3 (SH3) domain profile. 78 139 23.791
34 g11447.t1 ProSiteProfiles PS50001 Src homology 2 (SH2) domain profile. 145 242 24.523
35 g11447.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 267 520 43.566
31 g11447.t1 SMART SM00326 SH3_2 81 138 1.2E-16
32 g11447.t1 SMART SM00252 SH2_5 143 233 1.2E-32
30 g11447.t1 SMART SM00219 tyrkin_6 267 519 1.2E-140
21 g11447.t1 SUPERFAMILY SSF50044 SH3-domain 78 191 3.81E-22
20 g11447.t1 SUPERFAMILY SSF55550 SH2 domain 141 287 3.9E-36
19 g11447.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 246 515 6.12E-81

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