General information for g4741.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tyrosine-protein kinase Dnt.
Parent gene
- The parent gene g4741 is located on chr_2: 4585652..4586555 (- 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_2 | g4741 | g4741.t1 | TTS | g4741.t1 | 4579516 | 4579516 |
| chr_2 | g4741 | g4741.t1 | isoform | g4741.t1 | 4579612 | 4586239 |
| chr_2 | g4741 | g4741.t1 | exon | g4741.t1.exon1 | 4579612 | 4579723 |
| chr_2 | g4741 | g4741.t1 | cds | g4741.t1.CDS1 | 4579612 | 4579723 |
| chr_2 | g4741 | g4741.t1 | exon | g4741.t1.exon2 | 4579794 | 4579870 |
| chr_2 | g4741 | g4741.t1 | cds | g4741.t1.CDS2 | 4579794 | 4579870 |
| chr_2 | g4741 | g4741.t1 | exon | g4741.t1.exon3 | 4579990 | 4581305 |
| chr_2 | g4741 | g4741.t1 | cds | g4741.t1.CDS3 | 4579990 | 4581305 |
| chr_2 | g4741 | g4741.t1 | exon | g4741.t1.exon4 | 4586134 | 4586239 |
| chr_2 | g4741 | g4741.t1 | cds | g4741.t1.CDS4 | 4586134 | 4586239 |
| chr_2 | g4741 | g4741.t1 | TSS | g4741.t1 | 4586555 | 4586555 |
Sequences
>g4741.t1 Gene=g4741 Length=1611
ATGAGGAATTTAACGCAAATCTTTGGATTATTTTTACTCTTATCAACAACTGCTTATGGA
TCATTCAATTTATACCTAAATGAACATGAAACTATGAGATTACTTGGACTGTCTGCAGAG
CTGTATTATGTTCGTGAAGGCTTAATCAATAAATATGCACTGACGTTCACAGTGCCAGTT
GGTGAGAATATTCGAGATATTGCATTTACGTGGCAAAGTTTAGCTGGTCGACCATTGCCC
TATAAAATCAATATAGCCACAACTGATCCCGTTGTGCTGCCACGTCCACAACTCAATATC
AGTCGAATAGGTGAAATGCCGCAGGATATCCAGACTTTTGCAATTGAAATGCGTTGCTCA
GGTGTAAGAGCAGCTGAAGTTGATGTCACAATATCCATTGAAGTGACACTCAATCGTGCA
ACAAATAATGTAACAGAATTAGTATTTACAAGAAGAAAGGTGTGCTTACAAAGTGATGTA
GTTGAAGACCATACAGACGATACAACATCACATACAAATATTGCAAAACCACCAAATGCG
ATTATCACTTTAATCGTAGGTGGCATTCTTGCTATGATTGTCGTCGCTATTTTAATATCA
GTCGCATATTGTGCACGTGGACCATCAAAAAGGAAACCACATTTATCACAGCCTGTACGA
ACATCCAGTTTTCAACGTCTACAGACACATTCATCTTCCTTAGCACCTTCCATTTGTCCT
ACAAATGCTACATTACCACGAAGTAAATGTTCTGAACCAGAAGAACTTCATCGTCGTATT
TCTGAAATTACCGTTCAACGATGTCGTGTTCGTTTATCGAGTCTGCTTCAGGAAGGTACA
TTCGGTCGTGTCTATCGTGGAACATACAACGACACTCAGGAAGTTTTGGTAAAAACTGTA
GGACAGCAAGCAAATCAAACACAAGTTTCGTTGCTTCTACAGGAAGGCATGAATCTTTAT
GGAGCTTGTCATGTTGGAATTTTATCTGTTTTTGGTGTCTCAATTGAAGATCATACAGCT
CCTTTCTTACTCTATGCTTCAGACAACAATACAAAGAATTTGAAACTTTTCTTACAAGAA
CCAATAGCAAGAACTCTCACAACTATTCAAATTGTCAAAATGTCATCTCAATTAGCTGCT
GCAATTTGTCATTTGCATGCTCATGGAGTTCTACACAAAGATATTGCTGCTAGAAATTGC
GTAATTGATGATGATTTAACTGTAAAATTGACAGATAATTCTCTGTCTCGAGATCTCTTT
CCACAAGACTATCATTGTCTTGGTGATCGTGAAAATCGACCTGTCAAATGGCTCTCGCTT
GAGGCTCTCACTAAAAAGCAATTCAGTGAAGCATCTGATGCTTGGGCATTTGGTGTTTTG
ATTTGGGAATTGTGCACGTTAGCTAAATCACCTTATAACGATATTGATGCCTTCGAGATC
GAAAATTATTTACGTGACGGATATCGATTAGTACAGCCACTCAATTGCCCTGATGAATTA
TTCACAATCATGGCTTATTGCTGGGCTGTTTCAATTCTAGAGCGTCCAACTTTTCAACAG
TTGCAGTTCTGTTTGCAAGATTTTTATAATCAACTCACACGTTATGTATGA
>g4741.t1 Gene=g4741 Length=536
MRNLTQIFGLFLLLSTTAYGSFNLYLNEHETMRLLGLSAELYYVREGLINKYALTFTVPV
GENIRDIAFTWQSLAGRPLPYKINIATTDPVVLPRPQLNISRIGEMPQDIQTFAIEMRCS
GVRAAEVDVTISIEVTLNRATNNVTELVFTRRKVCLQSDVVEDHTDDTTSHTNIAKPPNA
IITLIVGGILAMIVVAILISVAYCARGPSKRKPHLSQPVRTSSFQRLQTHSSSLAPSICP
TNATLPRSKCSEPEELHRRISEITVQRCRVRLSSLLQEGTFGRVYRGTYNDTQEVLVKTV
GQQANQTQVSLLLQEGMNLYGACHVGILSVFGVSIEDHTAPFLLYASDNNTKNLKLFLQE
PIARTLTTIQIVKMSSQLAAAICHLHAHGVLHKDIAARNCVIDDDLTVKLTDNSLSRDLF
PQDYHCLGDRENRPVKWLSLEALTKKQFSEASDAWAFGVLIWELCTLAKSPYNDIDAFEI
ENYLRDGYRLVQPLNCPDELFTIMAYCWAVSILERPTFQQLQFCLQDFYNQLTRYV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g4741.t1 | Gene3D | G3DSA:2.60.40.2170 | - | 18 | 165 | 1.0E-30 |
| 13 | g4741.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 222 | 345 | 8.9E-14 |
| 14 | g4741.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 346 | 535 | 2.9E-41 |
| 3 | g4741.t1 | PANTHER | PTHR24416:SF531 | DERAILED 2, ISOFORM B | 7 | 204 | 2.4E-118 |
| 5 | g4741.t1 | PANTHER | PTHR24416 | TYROSINE-PROTEIN KINASE RECEPTOR | 7 | 204 | 2.4E-118 |
| 4 | g4741.t1 | PANTHER | PTHR24416:SF531 | DERAILED 2, ISOFORM B | 250 | 533 | 2.4E-118 |
| 6 | g4741.t1 | PANTHER | PTHR24416 | TYROSINE-PROTEIN KINASE RECEPTOR | 250 | 533 | 2.4E-118 |
| 10 | g4741.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 384 | 402 | 2.2E-20 |
| 9 | g4741.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 433 | 443 | 2.2E-20 |
| 7 | g4741.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 452 | 474 | 2.2E-20 |
| 8 | g4741.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 496 | 518 | 2.2E-20 |
| 2 | g4741.t1 | Pfam | PF02019 | WIF domain | 24 | 155 | 1.5E-39 |
| 1 | g4741.t1 | Pfam | PF07714 | Protein tyrosine and serine/threonine kinase | 272 | 523 | 3.6E-62 |
| 18 | g4741.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 19 | g4741.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 20 | g4741.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 22 | g4741.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 17 | g4741.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 179 | - |
| 21 | g4741.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 180 | 205 | - |
| 16 | g4741.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 206 | 536 | - |
| 25 | g4741.t1 | ProSitePatterns | PS00109 | Tyrosine protein kinases specific active-site signature. | 390 | 402 | - |
| 27 | g4741.t1 | ProSiteProfiles | PS50814 | WIF domain profile. | 24 | 155 | 51.142 |
| 28 | g4741.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 270 | 529 | 25.375 |
| 26 | g4741.t1 | SMART | SM00469 | WIF_1 | 21 | 157 | 4.5E-69 |
| 11 | g4741.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 262 | 526 | 2.63E-51 |
| 12 | g4741.t1 | SignalP_EUK | SignalP-TM | SignalP-TM | 1 | 20 | - |
| 24 | g4741.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 4 | 26 | - |
| 23 | g4741.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 181 | 203 | - |
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:0005524 | ATP binding | MF |
| GO:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K05128 (RYK receptor-like tyrosine kinase)
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.
