General information for g7249.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Toll-like receptor 2.
Parent gene
- The parent gene g7249 is located on chr_2: 22349810..22353098 (+ 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 | g7249 | g7249.t1 | TSS | g7249.t1 | 22349578 | 22349578 |
| chr_2 | g7249 | g7249.t1 | isoform | g7249.t1 | 22349810 | 22353098 |
| chr_2 | g7249 | g7249.t1 | exon | g7249.t1.exon1 | 22349810 | 22350742 |
| chr_2 | g7249 | g7249.t1 | cds | g7249.t1.CDS1 | 22349810 | 22350742 |
| chr_2 | g7249 | g7249.t1 | exon | g7249.t1.exon2 | 22350990 | 22351110 |
| chr_2 | g7249 | g7249.t1 | cds | g7249.t1.CDS2 | 22350990 | 22351110 |
| chr_2 | g7249 | g7249.t1 | exon | g7249.t1.exon3 | 22351174 | 22353098 |
| chr_2 | g7249 | g7249.t1 | cds | g7249.t1.CDS3 | 22351174 | 22353098 |
| chr_2 | g7249 | g7249.t1 | TTS | g7249.t1 | NA | NA |
Sequences
>g7249.t1 Gene=g7249 Length=2979
ATGAAAATTATCTTCTTCATAATAGTGCTGGTCACTACGACAATATACGCTTTTCGGTTG
CGTGAAAATTTAAATGTTTTAGTGCCAAACAATGATGTGAATGTTCGTGCAAACATAAAA
AAACTTTTGTCAGATGATGATTCTGATCCTAAAGAAGTTAAAGAATTTTTAGAGATTGAT
AGACTGTTAAAACCAATGTATGAAAATAATGAAGAAAAATTAATTCCATCATCACCGCAG
ACTTTATTTCTTGCTAATTTAGTTGAAAGTGAAGGAATAAAAGATCAAAATAATATAACT
GATCCATTTTTATTTGATACTACTACAACAAAAAATCATTATCATAAAAAGAAACGAACA
ACAGTTACAAGAACCACACAAGGTTTTAAGGAAATTTTTGAACCAGAAGGTGGATATGCT
GAAACGACATTTGATTATGAAGAAAATTGGATTAATTTTACAGAAGTAACTACTAGTTCA
TATTTTGTAGAACTGACTAATTTAACAACTACAATAATGAATAATTATAATGATAGTTCG
CTTCCTTGGACAACAGATTCATATAATTTTAATACAACACTATTCAATAATATTTCTACC
ACAACTCAATTTACCAATAATTTTACTACATCAGATTATAATATTTCAACAAACTTCTCA
ACAACTGAACCATATAATAATTTTCCTAATGCAAGCACAACATCAACTTCTTTCATTTTT
ACTACGCCAACAGTTTTTACATCAACAGTATCAGAACCAAATCCAACTGTAAATGAAGAG
TGTTTACTTGGAAGTGTTAGTAAAACTCTCAAATGGGTCAATGAAAATGGAGCTTTGCAG
TTGGACTTCATTAACAGCAATTATGAAATGAGTAATTTAACAACTGCCGATTTTTCTAAA
TCAAAATCAAAGAATTCTTACTATCAAATTAAGGACATTGAAATTTTGTCATTGGCTTAT
AATGATTTTAATGAATTGCCAAATGATATTCTCAATCAATCATCTTCAACTTTGCAGTAT
CTTTCATTGATGGGAAATAATTTTAAATTTTTGGATTTACCAGACTCATTATTTTTACCA
AATTTGAAAGAACTTGATTTGAGAAACTGTGCATTGACTAATATTAAACCAATGCTTTTT
ATGAATTTAATAAATTTGAGGCGTTTATATTTATCAGGAAACAACATAATTCATCTCAAT
GATAATTCTTTTAATATTCCAAATTTGGAAAATTTAGATTTATCATCGAACCATGAAGAT
GCACCAATTCAAAGTCCCTTAACAATGACACCAAATGTGTTTAGTAACTTGAAGAAGTTG
AAATTTCTGGACCTTTCTCACACAAAATTAGAAACAAAGTCTATAGTGGGATTAAAAAAC
TTACCCATAAATTTGATTGGTGCTAGTTTTTGCTATACAGAACTTGCAACAAGTGATAAT
TTTCTTGAAAATTTAAAAGAAATCAAATATTTAGACCTTTCAGGAAACACGCAAATGAAT
TTTACAAAAAACATGTTTAGTAGTATATCAAATACTTTAGAAAGATTAGATATAAAGGAT
GCGAATGTGAGAAATTTAGAATGGACTCATCCATTGATTAAATTAAAAAGTTTAAATTTA
AAAGATAACAAGCTGAAATTTATCGACAATAATTCATTTTCACACATGCTAATATTGGAA
GATTTGAATCTTTCAAAAAATTCTATAGTAAATTGGTACACTCAATTATTCAGTCAAAAT
CAAAATTTAGAAACTTTGAATCTACGTGAAAATGCTCTGACACATATTACAACTGCAATG
AAGGATGATTTATTTAAAGTGAGACGTCTAGCAATAGGAAAAAATGCTTTTGAGTGTAGT
TGTGAATTGAACGATTTTATGCACACACTTTTCGATGCAACAAAAAATGCAAATTTAACG
GAAATTAAACAAGATTTAAATATTGCAGATACACAATCATCATCAACAACAATACATTCA
ATTTCATTGGGTATGCGAAATTATTTGAGTCCGGAATATGATATTATGTCGAGAACTTAT
CAAAAGTATTATGAGCAAATTTTAAATAGTATTGAAGCATTAAAGAAGAATAATTATAGT
AGAAAGTCAAAGTCACTAATTTCTTTTATGATGTCGATGTCAGATGCACCAAAGTCTATT
CAAACAGTCCTCTTTGACTATGATGAGAATAATGAGGATTATCAGTGCATGAACAAGACA
CTAAAAGAGCAACAATCGATACTCAACTTAATTGAAGTATGTGATGTGCTACCGCCAAAT
GATCCACTATATATAAGAAATAATGACGCTATAATAATAGCACTTTCCACATCTATACCT
ACAGTGCTCGTTGTTTCCGTGTTGATATTTATCATTTATTGGAAGTGGTTTTACATCCGC
TATTTTTTTATTCTTTGTAAAAATTCTGCTATACTGAGCTTTATGGATGACGATGATGGA
GGAAAGGAAGTAATTGTGAGAAAAACGAGCACCAATTCTATTGATATTTTCCTTTATGAT
GTCTTTGTTAGCTATTCGGATTATAATCGTTCTTGGGTGTTGGATGAATTTATTCCAAAT
GTTGAGAGACGTGAATCAATAAATGTGTGCTTACATGAGCGTGATTTTCAAGTAGGCTAT
GGAATTCTTGAAAATATTGTTTCGTGTATGGATCGATCACGATGTTTGTTACTTTTAGTA
TCTGAAAAATTCTTACAAAGTCAATGGTGTCAATTTGAGATGAATTTAGCACAACATCGA
CTCCTTGAGATGCGTAAAGAAAAACTTATATTGGTACTTCTTGAAGATATTCCTCTGCGG
AAGCAAACGAAAACTTTAAAATATTTAATGCGTACAAAGACTTATCTAAAATGGCCCATT
AATGGCACAAATGATGAAAAACATTTGTTTTGGAAACGTCTAAGAAAAGCAATAATTTCG
GGCAAATGGGAATACGATAATTATGGAAGCACTGCATAA
>g7249.t1 Gene=g7249 Length=992
MKIIFFIIVLVTTTIYAFRLRENLNVLVPNNDVNVRANIKKLLSDDDSDPKEVKEFLEID
RLLKPMYENNEEKLIPSSPQTLFLANLVESEGIKDQNNITDPFLFDTTTTKNHYHKKKRT
TVTRTTQGFKEIFEPEGGYAETTFDYEENWINFTEVTTSSYFVELTNLTTTIMNNYNDSS
LPWTTDSYNFNTTLFNNISTTTQFTNNFTTSDYNISTNFSTTEPYNNFPNASTTSTSFIF
TTPTVFTSTVSEPNPTVNEECLLGSVSKTLKWVNENGALQLDFINSNYEMSNLTTADFSK
SKSKNSYYQIKDIEILSLAYNDFNELPNDILNQSSSTLQYLSLMGNNFKFLDLPDSLFLP
NLKELDLRNCALTNIKPMLFMNLINLRRLYLSGNNIIHLNDNSFNIPNLENLDLSSNHED
APIQSPLTMTPNVFSNLKKLKFLDLSHTKLETKSIVGLKNLPINLIGASFCYTELATSDN
FLENLKEIKYLDLSGNTQMNFTKNMFSSISNTLERLDIKDANVRNLEWTHPLIKLKSLNL
KDNKLKFIDNNSFSHMLILEDLNLSKNSIVNWYTQLFSQNQNLETLNLRENALTHITTAM
KDDLFKVRRLAIGKNAFECSCELNDFMHTLFDATKNANLTEIKQDLNIADTQSSSTTIHS
ISLGMRNYLSPEYDIMSRTYQKYYEQILNSIEALKKNNYSRKSKSLISFMMSMSDAPKSI
QTVLFDYDENNEDYQCMNKTLKEQQSILNLIEVCDVLPPNDPLYIRNNDAIIIALSTSIP
TVLVVSVLIFIIYWKWFYIRYFFILCKNSAILSFMDDDDGGKEVIVRKTSTNSIDIFLYD
VFVSYSDYNRSWVLDEFIPNVERRESINVCLHERDFQVGYGILENIVSCMDRSRCLLLLV
SEKFLQSQWCQFEMNLAQHRLLEMRKEKLILVLLEDIPLRKQTKTLKYLMRTKTYLKWPI
NGTNDEKHLFWKRLRKAIISGKWEYDNYGSTA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7249.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 265 | 497 | 5.8E-28 |
| 9 | g7249.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 498 | 662 | 1.9E-19 |
| 7 | g7249.t1 | Gene3D | G3DSA:3.40.50.10140 | - | 830 | 981 | 1.4E-45 |
| 3 | g7249.t1 | PANTHER | PTHR24365:SF530 | MSTPROX-RELATED | 127 | 978 | 1.5E-74 |
| 4 | g7249.t1 | PANTHER | PTHR24365 | TOLL-LIKE RECEPTOR | 127 | 978 | 1.5E-74 |
| 1 | g7249.t1 | Pfam | PF13855 | Leucine rich repeat | 360 | 418 | 2.6E-10 |
| 2 | g7249.t1 | Pfam | PF01582 | TIR domain | 839 | 980 | 1.4E-20 |
| 12 | g7249.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 13 | g7249.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 14 | g7249.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 12 | - |
| 16 | g7249.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 11 | g7249.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 769 | - |
| 15 | g7249.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 770 | 794 | - |
| 10 | g7249.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 795 | 992 | - |
| 28 | g7249.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 312 | 333 | 5.417 |
| 30 | g7249.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 337 | 360 | 5.787 |
| 29 | g7249.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 361 | 382 | 6.888 |
| 32 | g7249.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 385 | 406 | 7.666 |
| 27 | g7249.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 408 | 428 | 5.995 |
| 33 | g7249.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 439 | 462 | 6.11 |
| 26 | g7249.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 534 | 555 | 7.365 |
| 31 | g7249.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 558 | 579 | 5.517 |
| 25 | g7249.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 582 | 603 | 6.495 |
| 34 | g7249.t1 | ProSiteProfiles | PS50104 | TIR domain profile. | 837 | 981 | 27.726 |
| 20 | g7249.t1 | SMART | SM00369 | LRR_typ_2 | 310 | 333 | 130.0 |
| 21 | g7249.t1 | SMART | SM00369 | LRR_typ_2 | 359 | 382 | 0.28 |
| 22 | g7249.t1 | SMART | SM00369 | LRR_typ_2 | 383 | 406 | 1.3 |
| 19 | g7249.t1 | SMART | SM00369 | LRR_typ_2 | 532 | 555 | 0.21 |
| 18 | g7249.t1 | SMART | SM00369 | LRR_typ_2 | 556 | 579 | 360.0 |
| 23 | g7249.t1 | SMART | SM00369 | LRR_typ_2 | 581 | 603 | 220.0 |
| 24 | g7249.t1 | SMART | SM00255 | till_3 | 838 | 981 | 2.5E-26 |
| 6 | g7249.t1 | SUPERFAMILY | SSF52058 | L domain-like | 288 | 637 | 8.67E-34 |
| 5 | g7249.t1 | SUPERFAMILY | SSF52200 | Toll/Interleukin receptor TIR domain | 835 | 978 | 8.5E-38 |
| 17 | g7249.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 772 | 794 | - |
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:0007165 | signal transduction | BP |
| GO:0005515 | protein binding | MF |
| GO:0016021 | integral component of membrane | CC |
| GO:0006955 | immune response | BP |
| GO:0004888 | transmembrane signaling receptor activity | MF |
| GO:0002224 | toll-like receptor signaling pathway | 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. There were no conditions that were differentially expressed