General information for g3089.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Leucine-rich repeat-containing G-protein coupled receptor 4.
Parent gene
- The parent gene g3089 is located on chr_3: 22638452..22639446 (+ 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 | g3089 | g3089.t2 | TSS | g3089.t2 | 22638244 | 22638244 |
| chr_3 | g3089 | g3089.t2 | isoform | g3089.t2 | 22638452 | 22639446 |
| chr_3 | g3089 | g3089.t2 | exon | g3089.t2.exon1 | 22638452 | 22638456 |
| chr_3 | g3089 | g3089.t2 | cds | g3089.t2.CDS1 | 22638452 | 22638456 |
| chr_3 | g3089 | g3089.t2 | exon | g3089.t2.exon2 | 22638567 | 22639446 |
| chr_3 | g3089 | g3089.t2 | cds | g3089.t2.CDS2 | 22638567 | 22639446 |
| chr_3 | g3089 | g3089.t2 | TTS | g3089.t2 | 22639493 | 22639493 |
Sequences
>g3089.t2 Gene=g3089 Length=885
ATGTCAATTGATGAAAATGCATTTGCTGATTGTCGTGATCTTGAATATTTGTTATTGCAA
TCTAATAGACTACGAGAAATTCATGAAAATGCATTCAGTGAAAATTTGCAATTATCAATT
TTGGATTTATCGAACAATCAATTAATTCGATTACCTGGAAATTTGTTTAGAAATCAAATT
AATTTGTATTTTCTCCAACTTGCTTCAAATCAACTTCAAGAGCTACCAAGCGATATTTTC
AATCAATTGTCAGAACTTGGAATGTTAAATTTAGATTCAAATCAACTACAAGATTTGCCT
GAAGGAATTTTCGATAACCTACCAAATCTTTATTATCTTTCATTTTCATTTAACCAAATT
GTAAAACTAAGAGAAAATTTGATTGATAAACTTTACAGCATTCAAAATTTTTTGGCTCCT
TTCAATCAAATCATTTATATTCCACGAAACTTCTTTGATGGAAATCCTTATCTTTCGAGC
ATTATTATCAGTGGAAATAATTTAACAATACTTGAATTAAATCCTATTCCAATGCTTTCT
GATTTTTGGTTCGAACATAATCAAATTAATGCAATTGATGAGAGAATTTTTAATAATGTG
ACACTTAGATCGTTAAATGGCGGTCCAAATCCATGTGCTGATAGAAATGGCATAATTTCA
AATCCAACAAATGATGACATCAGAGCAGCGTTGCATAGATGTTTTGATAATTTCAATCCA
ATTGAAACGACAACAACACCTGGAGAAGAAATTACAAAACCAACAACAGAGCCAAATGGG
TGTGAAGTTGGAAATATTGAAGAAAGAATTTGTCAATTGGAGGCTGAAAATGCCGAATTG
AGAGCGAGACTGGAATATTTGGAGAAAATTGTTTTAGGTCGTTAA
>g3089.t2 Gene=g3089 Length=294
MSIDENAFADCRDLEYLLLQSNRLREIHENAFSENLQLSILDLSNNQLIRLPGNLFRNQI
NLYFLQLASNQLQELPSDIFNQLSELGMLNLDSNQLQDLPEGIFDNLPNLYYLSFSFNQI
VKLRENLIDKLYSIQNFLAPFNQIIYIPRNFFDGNPYLSSIIISGNNLTILELNPIPMLS
DFWFEHNQINAIDERIFNNVTLRSLNGGPNPCADRNGIISNPTNDDIRAALHRCFDNFNP
IETTTTPGEEITKPTTEPNGCEVGNIEERICQLEAENAELRARLEYLEKIVLGR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g3089.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 1 | 228 | 0.00000 |
| 2 | g3089.t2 | PANTHER | PTHR24373:SF345 | - | 2 | 127 | 0.00000 |
| 4 | g3089.t2 | PANTHER | PTHR24373 | SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN | 2 | 127 | 0.00000 |
| 3 | g3089.t2 | PANTHER | PTHR24373:SF345 | - | 41 | 206 | 0.00000 |
| 5 | g3089.t2 | PANTHER | PTHR24373 | SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN | 41 | 206 | 0.00000 |
| 1 | g3089.t2 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 2 | 110 | 0.00000 |
| 18 | g3089.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 13 | 34 | 6.84900 |
| 14 | g3089.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 37 | 58 | 7.42700 |
| 16 | g3089.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 61 | 82 | 6.77200 |
| 15 | g3089.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 85 | 106 | 6.68000 |
| 17 | g3089.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 109 | 131 | 5.94100 |
| 12 | g3089.t2 | SMART | SM00369 | LRR_typ_2 | 11 | 34 | 11.00000 |
| 7 | g3089.t2 | SMART | SM00369 | LRR_typ_2 | 37 | 58 | 9.70000 |
| 11 | g3089.t2 | SMART | SM00369 | LRR_typ_2 | 60 | 82 | 14.00000 |
| 8 | g3089.t2 | SMART | SM00369 | LRR_typ_2 | 83 | 106 | 0.00078 |
| 9 | g3089.t2 | SMART | SM00369 | LRR_typ_2 | 107 | 130 | 9.70000 |
| 10 | g3089.t2 | SMART | SM00369 | LRR_typ_2 | 176 | 199 | 60.00000 |
| 6 | g3089.t2 | SUPERFAMILY | SSF52058 | L domain-like | 7 | 192 | 0.00000 |
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