General information for g16495.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Leucine-rich repeat-containing protein 15.
Parent gene
- The parent gene g16495 is located on chr_4: 9704375..9706081 (- 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 | g16495 | g16495.t2 | isoform | g16495.t2 | 9704375 | 9706081 |
| chr_4 | g16495 | g16495.t2 | exon | g16495.t2.exon1 | 9704375 | 9705402 |
| chr_4 | g16495 | g16495.t2 | cds | g16495.t2.CDS1 | 9704375 | 9705402 |
| chr_4 | g16495 | g16495.t2 | exon | g16495.t2.exon2 | 9705465 | 9705629 |
| chr_4 | g16495 | g16495.t2 | cds | g16495.t2.CDS2 | 9705465 | 9705629 |
| chr_4 | g16495 | g16495.t2 | exon | g16495.t2.exon3 | 9706015 | 9706081 |
| chr_4 | g16495 | g16495.t2 | cds | g16495.t2.CDS3 | 9706015 | 9706081 |
| chr_4 | g16495 | g16495.t2 | TSS | g16495.t2 | NA | NA |
| chr_4 | g16495 | g16495.t2 | TTS | g16495.t2 | NA | NA |
Sequences
>g16495.t2 Gene=g16495 Length=1260
ATGAAATCAGTTAATTTTGTAATTTATACTTCCATTGTTTTTGGAATTTTAATAAAAACT
TCAAAAGCAAATAATGAGCTAAAATCACATTATCAAGGTCAAAGTAATTCAAATCACTCT
CAAAATGAACTTTGTGGATTAAAAGAAGATTGTAAGAAAAATAATCATCATGAAGGTTTT
AAATGTCAACTTGGCTTCAGATTTGTGCATAATCAATGTGAAGAAAATCCAAATCAAATT
GATGGAAAATTTGAAGTTCAAAAATGTAAAAGTTTTTTTTTCTATAACTGTTCAAATGTT
CTATTGACATTTCTACCGGAAAATGGATTAAAAATTACAACATTTGACACTGAAATTTCA
TCAAAATATAAAAATGATTCTGTTAGTAGATTTAGAATTGAATTAGATGGTAATTGCGTC
AATTGCAGGAATAAAAATGTAATTTATCTTCCAATTAGAATAGCAGAAACGTTTCCAAAT
TTATCTGAATATTTTGCAAATCGACTTGATGTGAAAATATTAAAATATGAAAACTTTAAA
AATATGAAAAATTTGAAAAAATTAACAATTGATAACAATGAAATTGAAACAATTGACGAA
AATTCTTTTGATGACTTAAATGAATTAGTTTTTTTAGATTTAAGCCAAAATAAAATAAAA
AACTTTGATCCAAGAATTTTTAAATCAACTTTGAAGCTGACTTATTTAAATTTAAGTTTA
AACCAAATAATTTCATTAATTGCAGACCATTTAAAATTTCTCTCTAAGCTGAAGTTTTTA
GATTTGTCTTATAATAAAATTACAAATTTAAATTCAAATGTTTTCGAAAACTCAAAAAAT
CTAGAAAATTTACGTTTAAATTCCAATCAAATCAAAAACCTTCCACTTGGAATTTTTGAT
AAAACCGAGAATTTAAAAGAAATAATTTTGTCAAGCAATGAATTGACAACATTAAATTCT
GATATTTTTAATAATTTGATCAATCTTAAATTCATTTCGTTGAGTTACAATAAATTTACA
ACACTTGATGAAAATTTATTTAAAAATAATAAAAATCTAGAGAGCATCATTTTACATGGT
AACGATTTTTCATATTTACCTTGGAAATTGTTTGAAGATAAAACTAATTTGACAAATTTT
TATATAAAACTCAATAAATTTAATGAAAAACTTTATGTTGGTAGTAAAATACTTACAGAA
GATGAAAGAAATGAGATAAAAAATGACCTGAAGAAATATTTAGGAAATGGATTGAAATAA
>g16495.t2 Gene=g16495 Length=419
MKSVNFVIYTSIVFGILIKTSKANNELKSHYQGQSNSNHSQNELCGLKEDCKKNNHHEGF
KCQLGFRFVHNQCEENPNQIDGKFEVQKCKSFFFYNCSNVLLTFLPENGLKITTFDTEIS
SKYKNDSVSRFRIELDGNCVNCRNKNVIYLPIRIAETFPNLSEYFANRLDVKILKYENFK
NMKNLKKLTIDNNEIETIDENSFDDLNELVFLDLSQNKIKNFDPRIFKSTLKLTYLNLSL
NQIISLIADHLKFLSKLKFLDLSYNKITNLNSNVFENSKNLENLRLNSNQIKNLPLGIFD
KTENLKEIILSSNELTTLNSDIFNNLINLKFISLSYNKFTTLDENLFKNNKNLESIILHG
NDFSYLPWKLFEDKTNLTNFYIKLNKFNEKLYVGSKILTEDERNEIKNDLKKYLGNGLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g16495.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 135 | 258 | 5.2E-21 |
| 12 | g16495.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 259 | 409 | 3.3E-29 |
| 6 | g16495.t2 | PANTHER | PTHR24366 | IG(IMMUNOGLOBULIN) AND LRR(LEUCINE RICH REPEAT) DOMAINS | 156 | 304 | 2.9E-44 |
| 5 | g16495.t2 | PANTHER | PTHR24366 | IG(IMMUNOGLOBULIN) AND LRR(LEUCINE RICH REPEAT) DOMAINS | 233 | 364 | 2.9E-44 |
| 4 | g16495.t2 | PANTHER | PTHR24366 | IG(IMMUNOGLOBULIN) AND LRR(LEUCINE RICH REPEAT) DOMAINS | 303 | 386 | 2.9E-44 |
| 7 | g16495.t2 | PRINTS | PR00019 | Leucine-rich repeat signature | 209 | 222 | 5.9E-5 |
| 8 | g16495.t2 | PRINTS | PR00019 | Leucine-rich repeat signature | 254 | 267 | 5.9E-5 |
| 3 | g16495.t2 | Pfam | PF13855 | Leucine rich repeat | 177 | 219 | 6.3E-11 |
| 2 | g16495.t2 | Pfam | PF13855 | Leucine rich repeat | 232 | 291 | 1.5E-8 |
| 1 | g16495.t2 | Pfam | PF13855 | Leucine rich repeat | 304 | 363 | 2.1E-10 |
| 14 | g16495.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 15 | g16495.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 6 | - |
| 16 | g16495.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 7 | 18 | - |
| 17 | g16495.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 23 | - |
| 13 | g16495.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 419 | - |
| 30 | g16495.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 184 | 205 | 6.849 |
| 26 | g16495.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 208 | 229 | 6.811 |
| 32 | g16495.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 232 | 255 | 6.834 |
| 29 | g16495.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 256 | 277 | 8.058 |
| 27 | g16495.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 280 | 301 | 7.196 |
| 28 | g16495.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 304 | 325 | 6.434 |
| 25 | g16495.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 328 | 349 | 6.326 |
| 31 | g16495.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 352 | 373 | 4.816 |
| 22 | g16495.t2 | SMART | SM00369 | LRR_typ_2 | 182 | 205 | 0.8 |
| 21 | g16495.t2 | SMART | SM00369 | LRR_typ_2 | 206 | 229 | 2.3 |
| 18 | g16495.t2 | SMART | SM00369 | LRR_typ_2 | 254 | 277 | 0.0043 |
| 23 | g16495.t2 | SMART | SM00369 | LRR_typ_2 | 279 | 301 | 6.2 |
| 24 | g16495.t2 | SMART | SM00369 | LRR_typ_2 | 302 | 325 | 17.0 |
| 19 | g16495.t2 | SMART | SM00369 | LRR_typ_2 | 326 | 349 | 0.075 |
| 20 | g16495.t2 | SMART | SM00369 | LRR_typ_2 | 351 | 373 | 170.0 |
| 9 | g16495.t2 | SUPERFAMILY | SSF52058 | L domain-like | 138 | 389 | 5.19E-43 |
| 10 | g16495.t2 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 23 | - |
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