General information for g11448.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tyrosine-protein kinase Src64B.
Parent gene
- The parent gene g11448 is located on chr_1: 16318836..16319407 (+ 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 |
|---|---|---|---|---|---|---|
| chr_1 | g11448 | g11448.t1 | TSS | g11448.t1 | 16317197 | 16317197 |
| chr_1 | g11448 | g11448.t1 | isoform | g11448.t1 | 16317507 | 16319407 |
| chr_1 | g11448 | g11448.t1 | exon | g11448.t1.exon1 | 16317507 | 16317528 |
| chr_1 | g11448 | g11448.t1 | cds | g11448.t1.CDS1 | 16317507 | 16317528 |
| chr_1 | g11448 | g11448.t1 | exon | g11448.t1.exon2 | 16317596 | 16317684 |
| chr_1 | g11448 | g11448.t1 | cds | g11448.t1.CDS2 | 16317596 | 16317684 |
| chr_1 | g11448 | g11448.t1 | exon | g11448.t1.exon3 | 16317805 | 16317878 |
| chr_1 | g11448 | g11448.t1 | cds | g11448.t1.CDS3 | 16317805 | 16317878 |
| chr_1 | g11448 | g11448.t1 | exon | g11448.t1.exon4 | 16317946 | 16318203 |
| chr_1 | g11448 | g11448.t1 | cds | g11448.t1.CDS4 | 16317946 | 16318203 |
| chr_1 | g11448 | g11448.t1 | exon | g11448.t1.exon5 | 16318261 | 16318714 |
| chr_1 | g11448 | g11448.t1 | cds | g11448.t1.CDS5 | 16318261 | 16318714 |
| chr_1 | g11448 | g11448.t1 | exon | g11448.t1.exon6 | 16318776 | 16318838 |
| chr_1 | g11448 | g11448.t1 | cds | g11448.t1.CDS6 | 16318776 | 16318838 |
| chr_1 | g11448 | g11448.t1 | exon | g11448.t1.exon7 | 16318889 | 16318953 |
| chr_1 | g11448 | g11448.t1 | cds | g11448.t1.CDS7 | 16318889 | 16318953 |
| chr_1 | g11448 | g11448.t1 | exon | g11448.t1.exon8 | 16319005 | 16319073 |
| chr_1 | g11448 | g11448.t1 | cds | g11448.t1.CDS8 | 16319005 | 16319073 |
| chr_1 | g11448 | g11448.t1 | exon | g11448.t1.exon9 | 16319140 | 16319407 |
| chr_1 | g11448 | g11448.t1 | cds | g11448.t1.CDS9 | 16319140 | 16319407 |
| chr_1 | g11448 | g11448.t1 | TTS | g11448.t1 | 16319618 | 16319618 |
Sequences
>g11448.t1 Gene=g11448 Length=1362
ATGGGTTGCTGTTGTAGTGTTAATGAAAGGAGCAAAATCGTTATAGGGTTGTTTGATTAT
AAAGCTCAAGAAACTATTGATATTTCTTTTAAAAAGGGAGATCGAATGCAAAATCTAGAA
ACTAAAGCAAGAGGCTTGATTCCAAAGAACTATGTAGCAGAAGAAGGAACTATTTATTGC
GAAGATTGGTTCTTTGATAATATTTCTCGAAAAGAAGCTGAAAATTTATTATTGGCAAGA
GAAAATACTAAAGGAACATTTTTAATTAGACCATCTGAACAATTCAACAACAGATTTTCT
CTTAGTGTTAAAGATTTTGATAGATCTAGAGGATATCATGTGAAGCACTATAAAATTAAA
CCGAAAGAGAATGGTCATTACTACATTGCATCAACACAAACCTTTCCAGATTTAGCATCA
TTAGTCGCTGCTTATTCGAGAAACACAATGGGTCTCACACATATTTTAAGAAACCCTTGT
CCCAAAATACCTCCCATACTATATGATCTATCACCATCAATGAGAGACGGATGGGAAATA
GATAGAAATGAAATAAGATTAGTTAAAAAACTCGGAGAAGGCAATTTTGGTGAAGTTTAT
TATGGAAAATGGAAGAATGGAACTGAAGTGGCTATTAAAACTTTGAGACAGGGCACAATG
TCAACACAAGCTTTTCTTCAAGAAGCTGCCATAATGAAAAAATTCCGTCATAATAGACTA
GTCGCACTATATGCTGTATGTTCGAAAGAAGAACCAATATACATTGTTCAAGAATATATG
TGTAAGGGAAGTTTACTTGACTTTCTTCATAGCAGTGATGGTAGAAGACTTAGAAACGAA
GAACTTGTGTATATTGCAGCACAAGTTGCATCTGGCATGGATTATTTAGAAAAGAAACAA
TTAGTTCATAGAGATCTGGCTGCGAGAAATGTGCTAGTCGGGAGAAATCTTATAGCAAAG
GTGTCCGATTTTGGTCTGGCTAGGGTCATTAATGATGAAGCATATTTCGCAACACAAGGA
TCAAGATTTCCATACAAGTGGACATCTGTAGAAGGAATTATGTATGGGAGATTTACTATT
AAATCTGACGTATGGTCTTATGGAATACTTTTGATGGAACTTTTCACATACGGTAGAGTG
CCATATCCCGGTATGTCAAACGATGAAGTGGCTGAAAAGGTTGAACGTGGATATAGAATG
CCACGACCAAATAGACCTGAAGTAGCTTTAGAAATATACGAAATAATGCTCCAATGTTGG
AATGCACAGGAAGAAAGACGACCAACTTTTGAATATTTAAAACATTTCTTTAAAAATTAT
GGTGTCGCTTCAGAAATGCAATATAGAGATCTTGATGAATGA
>g11448.t1 Gene=g11448 Length=453
MGCCCSVNERSKIVIGLFDYKAQETIDISFKKGDRMQNLETKARGLIPKNYVAEEGTIYC
EDWFFDNISRKEAENLLLARENTKGTFLIRPSEQFNNRFSLSVKDFDRSRGYHVKHYKIK
PKENGHYYIASTQTFPDLASLVAAYSRNTMGLTHILRNPCPKIPPILYDLSPSMRDGWEI
DRNEIRLVKKLGEGNFGEVYYGKWKNGTEVAIKTLRQGTMSTQAFLQEAAIMKKFRHNRL
VALYAVCSKEEPIYIVQEYMCKGSLLDFLHSSDGRRLRNEELVYIAAQVASGMDYLEKKQ
LVHRDLAARNVLVGRNLIAKVSDFGLARVINDEAYFATQGSRFPYKWTSVEGIMYGRFTI
KSDVWSYGILLMELFTYGRVPYPGMSNDEVAEKVERGYRMPRPNRPEVALEIYEIMLQCW
NAQEERRPTFEYLKHFFKNYGVASEMQYRDLDE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 21 | g11448.t1 | Gene3D | G3DSA:2.30.30.40 | SH3 Domains | 5 | 52 | 6.5E-8 |
| 23 | g11448.t1 | Gene3D | G3DSA:3.30.505.10 | SHC Adaptor Protein | 53 | 163 | 1.4E-30 |
| 22 | g11448.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 178 | 440 | 4.0E-89 |
| 3 | g11448.t1 | PANTHER | PTHR24418:SF224 | TYROSINE-PROTEIN KINASE FGR | 12 | 450 | 1.7E-159 |
| 4 | g11448.t1 | PANTHER | PTHR24418 | TYROSINE-PROTEIN KINASE | 12 | 450 | 1.7E-159 |
| 17 | g11448.t1 | PRINTS | PR00452 | SH3 domain signature | 12 | 22 | 5.2E-6 |
| 16 | g11448.t1 | PRINTS | PR00452 | SH3 domain signature | 26 | 41 | 5.2E-6 |
| 15 | g11448.t1 | PRINTS | PR00452 | SH3 domain signature | 43 | 55 | 5.2E-6 |
| 5 | g11448.t1 | PRINTS | PR00401 | SH2 domain signature | 63 | 77 | 2.0E-13 |
| 6 | g11448.t1 | PRINTS | PR00401 | SH2 domain signature | 84 | 94 | 2.0E-13 |
| 9 | g11448.t1 | PRINTS | PR00401 | SH2 domain signature | 96 | 107 | 2.0E-13 |
| 7 | g11448.t1 | PRINTS | PR00401 | SH2 domain signature | 113 | 123 | 2.0E-13 |
| 8 | g11448.t1 | PRINTS | PR00401 | SH2 domain signature | 134 | 148 | 2.0E-13 |
| 13 | g11448.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 257 | 270 | 8.5E-32 |
| 10 | g11448.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 295 | 313 | 8.5E-32 |
| 14 | g11448.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 343 | 353 | 8.5E-32 |
| 12 | g11448.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 362 | 384 | 8.5E-32 |
| 11 | g11448.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 408 | 430 | 8.5E-32 |
| 1 | g11448.t1 | Pfam | PF00017 | SH2 domain | 63 | 145 | 4.5E-23 |
| 2 | g11448.t1 | Pfam | PF07714 | Protein tyrosine and serine/threonine kinase | 186 | 436 | 4.7E-93 |
| 25 | g11448.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 191 | 213 | - |
| 24 | g11448.t1 | ProSitePatterns | PS00109 | Tyrosine protein kinases specific active-site signature. | 301 | 313 | - |
| 29 | g11448.t1 | ProSiteProfiles | PS50001 | Src homology 2 (SH2) domain profile. | 63 | 160 | 23.588 |
| 30 | g11448.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 185 | 438 | 40.852 |
| 27 | g11448.t1 | SMART | SM00326 | SH3_2 | 12 | 56 | 0.0016 |
| 28 | g11448.t1 | SMART | SM00252 | SH2_5 | 61 | 151 | 9.1E-29 |
| 26 | g11448.t1 | SMART | SM00219 | tyrkin_6 | 185 | 437 | 1.5E-133 |
| 20 | g11448.t1 | SUPERFAMILY | SSF50044 | SH3-domain | 12 | 82 | 2.76E-10 |
| 19 | g11448.t1 | SUPERFAMILY | SSF55550 | SH2 domain | 60 | 205 | 1.2E-35 |
| 18 | g11448.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 174 | 439 | 7.93E-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
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.
