General information for g3265.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative TLR4 interactor with leucine rich repeats.
Parent gene
- The parent gene g3265 is located on chr_3: 24090479..24091624 (+ 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_3 | g3265 | g3265.t1 | isoform | g3265.t1 | 24090479 | 24091624 |
| chr_3 | g3265 | g3265.t1 | exon | g3265.t1.exon1 | 24090479 | 24091624 |
| chr_3 | g3265 | g3265.t1 | cds | g3265.t1.CDS1 | 24090479 | 24091624 |
| chr_3 | g3265 | g3265.t1 | TTS | g3265.t1 | 24091665 | 24091665 |
| chr_3 | g3265 | g3265.t1 | TSS | g3265.t1 | NA | NA |
Sequences
>g3265.t1 Gene=g3265 Length=1146
ATGTTAATTGATAATCTCGATGGATTTGATGAATTTACGAATATTGAAGGTAAACATGAA
GAAGGCAAAAATGATGAAGATGTTTTGAATGTGAGTCGTACTGAAAATTCAACAACGACA
ATTTTTCCATCAATTATTTGTGAAAAATTTTTCAATGTGAAAGAAATTGATTTTTCATCT
GATAAAATTGAAATTATTAATGAAAAAGCTTTGAAAAATTGTAAAAATTTGGAATATTTA
AGACTAAATGGAAACAAATTTTCGCAAATCCCTGAAAATCTTTTCATTGAAAATTTGAAT
TTAATTTTTGTGAGTTTTAGTCAAGAAGGAATTAAATATGTGCCAAACAAACTTTTTAAT
AACAAAACCAAGTTAAAATGGATTTATTTGCATAACAATGAAATTGAAGAATTTTCCGAT
GGAACTTTTGATAATTTGATCAATCTTGAAGCTCTTTGGCTTAGTGAAAATCAACTAAAA
AGTTTACCTAACGAAATTTTTAAAGATCTTGTCAAAGTTATTTACATTGACTTGTCAAGG
AATCAATTATTCGATCTTAATCCAAATTGGTTCAAAAATCTTGTCAACCTTCAAGATCTT
CATTTGGATTTCAATAAAATTTTACAATTACCTGAAAATATTTTTGCACCATTAAAAATG
TTGAGAGCTCTAACAATTTCTAATAATCAACTTACTGTCATTCACTCAACTTCTTTTGGT
GATTATGGAAAATTTAATACAAATTTTTATGAATTTTATTTCTATAAAAATAATCTTGAG
GCTTTTGATGAAAGAATTATTGATAATACAATAATTTCTTGGATTTCTGCTGGTGAAAAT
CCTTGTGTTAATAGAAATGGCTCATTTTATGATGGATCACAAATGAAAAATGATATTCGA
GCAGCTTTAAAAAATTGTTTTACAAATTATCTTGAAATTAATGTAACAACAACCATGATA
ACAACAACAACAATGCCAACTACAACTGAAACCATAACGAGCACAAGTTCAAACACTGAA
GTCTTTACGAGCACATTATCAACTACAACTTCAAGTGCATCGAATAATAAGAAATTTTTT
ATTATAATTCTAGCATCATTTATTCAATTATATTTAATGAATTTTGTTTACAAATTATTC
ATTTGA
>g3265.t1 Gene=g3265 Length=381
MLIDNLDGFDEFTNIEGKHEEGKNDEDVLNVSRTENSTTTIFPSIICEKFFNVKEIDFSS
DKIEIINEKALKNCKNLEYLRLNGNKFSQIPENLFIENLNLIFVSFSQEGIKYVPNKLFN
NKTKLKWIYLHNNEIEEFSDGTFDNLINLEALWLSENQLKSLPNEIFKDLVKVIYIDLSR
NQLFDLNPNWFKNLVNLQDLHLDFNKILQLPENIFAPLKMLRALTISNNQLTVIHSTSFG
DYGKFNTNFYEFYFYKNNLEAFDERIIDNTIISWISAGENPCVNRNGSFYDGSQMKNDIR
AALKNCFTNYLEINVTTTMITTTTMPTTTETITSTSSNTEVFTSTLSTTTSSASNNKKFF
IIILASFIQLYLMNFVYKLFI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3265.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 25 | 145 | 1.3E-17 |
| 5 | g3265.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 146 | 325 | 1.3E-27 |
| 3 | g3265.t1 | PANTHER | PTHR46473 | GH08155P | 29 | 172 | 3.7E-41 |
| 2 | g3265.t1 | PANTHER | PTHR46473 | GH08155P | 124 | 275 | 3.7E-41 |
| 1 | g3265.t1 | Pfam | PF13855 | Leucine rich repeat | 148 | 207 | 4.7E-13 |
| 8 | g3265.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 358 | - |
| 9 | g3265.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 359 | 380 | - |
| 7 | g3265.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 381 | 381 | - |
| 22 | g3265.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 76 | 97 | 7.119 |
| 19 | g3265.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 124 | 145 | 6.518 |
| 18 | g3265.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 148 | 169 | 8.428 |
| 17 | g3265.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 172 | 193 | 4.947 |
| 20 | g3265.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 196 | 217 | 7.296 |
| 21 | g3265.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 220 | 241 | 5.764 |
| 15 | g3265.t1 | SMART | SM00369 | LRR_typ_2 | 74 | 97 | 7.1 |
| 14 | g3265.t1 | SMART | SM00369 | LRR_typ_2 | 123 | 145 | 20.0 |
| 12 | g3265.t1 | SMART | SM00369 | LRR_typ_2 | 146 | 169 | 6.0E-4 |
| 13 | g3265.t1 | SMART | SM00369 | LRR_typ_2 | 170 | 193 | 20.0 |
| 11 | g3265.t1 | SMART | SM00369 | LRR_typ_2 | 194 | 217 | 0.0013 |
| 16 | g3265.t1 | SMART | SM00369 | LRR_typ_2 | 218 | 241 | 0.34 |
| 4 | g3265.t1 | SUPERFAMILY | SSF52058 | L domain-like | 32 | 259 | 2.49E-41 |
| 10 | g3265.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 359 | 377 | - |
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:0005515 | protein binding | MF |
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