General information for g16492.t1
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 g16492 is located on chr_4: 9691495..9693401 (- 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_4 | g16492 | g16492.t1 | isoform | g16492.t1 | 9691495 | 9693401 |
| chr_4 | g16492 | g16492.t1 | exon | g16492.t1.exon1 | 9691495 | 9691537 |
| chr_4 | g16492 | g16492.t1 | cds | g16492.t1.CDS1 | 9691495 | 9691537 |
| chr_4 | g16492 | g16492.t1 | exon | g16492.t1.exon2 | 9691603 | 9691969 |
| chr_4 | g16492 | g16492.t1 | cds | g16492.t1.CDS2 | 9691603 | 9691969 |
| chr_4 | g16492 | g16492.t1 | exon | g16492.t1.exon3 | 9692069 | 9693401 |
| chr_4 | g16492 | g16492.t1 | cds | g16492.t1.CDS3 | 9692069 | 9693401 |
| chr_4 | g16492 | g16492.t1 | TSS | g16492.t1 | 9693424 | 9693424 |
| chr_4 | g16492 | g16492.t1 | TTS | g16492.t1 | NA | NA |
Sequences
>g16492.t1 Gene=g16492 Length=1743
ATGAAGTTTCTAAAAGCTTTTCTACTCTTTTCCGCATTTCTTGTTTCAAACTCAATTGCT
CAGCAGGCAATTTGTGACTTTAACTTACGTTTTATCGGTGGTGAATCATTCTATTCATGT
GGTCTGCAAATTGACAATCCAAATGGAATTGAAATAACATCAATAGAAGGAATTCATTTA
CAAAATTTCACTGATGCTGATGTACAAGGAATATATCAAATAGGTGGAATATCAACGAGA
ATTTTCCTTGGTGTCTTCTGTCAAAGATTTCCAAACATTCGAAGAGCTGCACTTTATAGT
TTCGGAATAACTGAACTTGCTGCTTATTCCTTTGTTGGGTGTGAATCACTTGAATGGCTT
TCAGTTTATGGAAATCAAATCAGTTCAATAAATCAAAATACTTTTGAAAATAATCGAAAC
TTAACCTATCTCGATTTGGACAGCAATCAGCTTACAACATTGCCTGAAGGACTTTTTGCC
AATATGAATAATTTGTTACATCTGGATATCAGTTTCAACCCATTTACTAGCATTCCTGGT
AATATTTTCAATGGTCTTCAAAATTTAAATACACTTTATATGCAAAATGCTAGAATTACA
ACCATAAATCCATCTTGGTTCACAATATTAACAAATTTAGAACATTTATATTTGAACTAC
AATCAAATAAGTGAAATTCCAGAAAATTCTTTTGCAAACTTGGGAAATTTAGTAGTTTTA
ATGTTGTACAACAACAATATCAGTGATATTAGTAATTTGAGAGGATTGGATAACTTGAGA
GTTCTTGATTTAAACACAAATAACATCAGAGATGTCAATGAAAATTCTTTCAATGGTTTT
GATTCTCTTAATTTTCTTGGATTAAATTATAATCCAATAACGATTATTAGAAATGGAACT
TTTCGTCTTTTGCATAATTTACAAGCATTAGAATTCGCTGCTACAGGTTTAAGGGAGATT
GAAAGTGATGTTTTTGGAAACCTCGAAAGATTATGGTACGTTGACTTTAATTTCAATGAA
ATTGAAGATTTGCCTTCTGGTGTTTTTGCTTCTTTAAATCAATTAAGACAAGTAGAATTA
AGAAACAACAGATTGAAAACTTTAAGAAGAGACCATTTTGGTCCAAATATTACAACAATT
GAAATAATTGATTTAGAAGAAAATGTCGTAAATTCACTTGAAATAAGTCTTTTTGATGAT
TTGACTGGTTTAGATTTATTTTTATTTGGAAATAATATTTGTGCAAGCGGAGTTTTTGGT
GGATTTATACAAAATAGAAATGAAATTATGCAAAGACTTGACAGATGTTTTAGAAACTTT
GATTTGATTATTGATGCCGTAACTGACAACAATGTCGATTATCTTTTCTTCCGTGGTGAA
AATCCTGGAATTGTTGCTCGAGTTCAAGCTGAAGATGAAATTCAAATTGCATTAACACCA
TTTAATTTTCCATGGTCACCAATGATTGAGGTCATCATTGGTGCAGCAAACAATACACGA
TCAATCATCAGACGAAATCAAGATGAAGATGTGGCTGTTGTGCCATCACCAGGAATCATC
AGGAGCAATCAACAAAATTTATTCAGAATAGTTTGGGCAAATCATGTGATTTTGGTGTTT
AGAGAAAATGAGCAATGGCCATTTTTGGTTCACACAATGATTGACTTTTTTAATGTCAAT
TTCTATGGATTGAGAACTTTGCAAAGTCGTGCAACATGGAGTATTCAACCAATTGGAGAT
TAA
>g16492.t1 Gene=g16492 Length=580
MKFLKAFLLFSAFLVSNSIAQQAICDFNLRFIGGESFYSCGLQIDNPNGIEITSIEGIHL
QNFTDADVQGIYQIGGISTRIFLGVFCQRFPNIRRAALYSFGITELAAYSFVGCESLEWL
SVYGNQISSINQNTFENNRNLTYLDLDSNQLTTLPEGLFANMNNLLHLDISFNPFTSIPG
NIFNGLQNLNTLYMQNARITTINPSWFTILTNLEHLYLNYNQISEIPENSFANLGNLVVL
MLYNNNISDISNLRGLDNLRVLDLNTNNIRDVNENSFNGFDSLNFLGLNYNPITIIRNGT
FRLLHNLQALEFAATGLREIESDVFGNLERLWYVDFNFNEIEDLPSGVFASLNQLRQVEL
RNNRLKTLRRDHFGPNITTIEIIDLEENVVNSLEISLFDDLTGLDLFLFGNNICASGVFG
GFIQNRNEIMQRLDRCFRNFDLIIDAVTDNNVDYLFFRGENPGIVARVQAEDEIQIALTP
FNFPWSPMIEVIIGAANNTRSIIRRNQDEDVAVVPSPGIIRSNQQNLFRIVWANHVILVF
RENEQWPFLVHTMIDFFNVNFYGLRTLQSRATWSIQPIGD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g16492.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 29 | 194 | 2.3E-27 |
| 14 | g16492.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 195 | 290 | 3.6E-23 |
| 15 | g16492.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 291 | 444 | 2.6E-20 |
| 7 | g16492.t1 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 88 | 250 | 8.0E-86 |
| 10 | g16492.t1 | PANTHER | PTHR45617 | - | 88 | 250 | 8.0E-86 |
| 6 | g16492.t1 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 178 | 312 | 8.0E-86 |
| 9 | g16492.t1 | PANTHER | PTHR45617 | - | 178 | 312 | 8.0E-86 |
| 5 | g16492.t1 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 231 | 408 | 8.0E-86 |
| 8 | g16492.t1 | PANTHER | PTHR45617 | - | 231 | 408 | 8.0E-86 |
| 2 | g16492.t1 | Pfam | PF13855 | Leucine rich repeat | 103 | 151 | 6.5E-10 |
| 1 | g16492.t1 | Pfam | PF13855 | Leucine rich repeat | 168 | 223 | 8.0E-13 |
| 3 | g16492.t1 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 272 | 398 | 1.2E-8 |
| 4 | g16492.t1 | Pfam | PF12248 | Farnesoic acid 0-methyl transferase | 476 | 569 | 4.4E-15 |
| 18 | g16492.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 19 | g16492.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 20 | g16492.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 15 | - |
| 21 | g16492.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 17 | g16492.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 580 | - |
| 46 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 116 | 137 | 6.803 |
| 47 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 140 | 161 | 7.981 |
| 50 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 164 | 185 | 7.05 |
| 42 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 188 | 209 | 5.186 |
| 48 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 212 | 233 | 8.859 |
| 43 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 236 | 257 | 8.929 |
| 49 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 258 | 279 | 7.55 |
| 51 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 282 | 303 | 5.841 |
| 45 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 330 | 351 | 5.178 |
| 44 | g16492.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 354 | 375 | 5.155 |
| 23 | g16492.t1 | SMART | SM00364 | LRR_bac_2 | 114 | 133 | 210.0 |
| 33 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 114 | 137 | 22.0 |
| 24 | g16492.t1 | SMART | SM00364 | LRR_bac_2 | 138 | 157 | 16.0 |
| 40 | g16492.t1 | SMART | SM00365 | LRR_sd22_2 | 138 | 160 | 250.0 |
| 37 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 139 | 161 | 0.0032 |
| 26 | g16492.t1 | SMART | SM00364 | LRR_bac_2 | 162 | 181 | 330.0 |
| 34 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 162 | 185 | 0.098 |
| 30 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 186 | 209 | 45.0 |
| 25 | g16492.t1 | SMART | SM00364 | LRR_bac_2 | 210 | 229 | 47.0 |
| 29 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 210 | 233 | 1.5E-6 |
| 38 | g16492.t1 | SMART | SM00365 | LRR_sd22_2 | 210 | 228 | 17.0 |
| 28 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 234 | 255 | 26.0 |
| 39 | g16492.t1 | SMART | SM00365 | LRR_sd22_2 | 234 | 255 | 30.0 |
| 27 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 256 | 279 | 0.029 |
| 41 | g16492.t1 | SMART | SM00365 | LRR_sd22_2 | 256 | 274 | 190.0 |
| 31 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 280 | 303 | 14.0 |
| 36 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 304 | 327 | 42.0 |
| 32 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 328 | 351 | 1.2 |
| 35 | g16492.t1 | SMART | SM00369 | LRR_typ_2 | 352 | 375 | 11.0 |
| 11 | g16492.t1 | SUPERFAMILY | SSF52058 | L domain-like | 81 | 408 | 1.6E-56 |
| 13 | g16492.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 22 | g16492.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 12 | g16492.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 22 | - |
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