General information for g15589.t1
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 g15589 is located on chr_4: 5967128..5968230 (+ 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 | g15589 | g15589.t1 | TSS | g15589.t1 | 5966306 | 5966306 |
| chr_4 | g15589 | g15589.t1 | isoform | g15589.t1 | 5967128 | 5968230 |
| chr_4 | g15589 | g15589.t1 | exon | g15589.t1.exon1 | 5967128 | 5967203 |
| chr_4 | g15589 | g15589.t1 | cds | g15589.t1.CDS1 | 5967128 | 5967203 |
| chr_4 | g15589 | g15589.t1 | exon | g15589.t1.exon2 | 5967260 | 5968230 |
| chr_4 | g15589 | g15589.t1 | cds | g15589.t1.CDS2 | 5967260 | 5968230 |
| chr_4 | g15589 | g15589.t1 | TTS | g15589.t1 | NA | NA |
Sequences
>g15589.t1 Gene=g15589 Length=1047
ATGAAAGCAAATATAGTTTTGCTTCTGCTTTTAATTTCAATAACTCTAGTTTCAGCCAAT
GAAAACTCAACTAAAGAGTTTATTGATGGAGAGGTTCTTGACACAAGATGTTGTTATTGG
CCTGGTGATTTTCTGGTATTTCGAGATTTTAACACTTTCAAGGTCAAAGATGACATAACA
ATTGAATCAAATGATGCTGAAATATTACCAAAGTTTAAAAGTGACAAAATTGAAAAAGTC
GAATTAAATTCTTGTTTTGTTATTTGTGGTTTTTGTGGATGCTCTAAAAATGATAGCAAT
ATTCATAATCTTCCTATAAAACTCAATGAAGTTTTTCCAAATTTATACGCGTATGTTGTT
AAGTACACAAAGGTCAAACGCTTAAAACACAAAAACTTTAAGAACTTGAATAAGTTGGAA
TATTTAACAATCGAAATGAGTCTTGTGAGTAAAATTAATGACGATGCTTTTGATGATTTG
ACTGAGTTGAAAGCTCTAAGTTTAATTTACAATAAAATTCATAATTTGAGTCCAAGATTG
CTTAAAAATACTTTAAAACTTGAAAGAATCAATCTTCAAGGCAATAAAATTACAAACATT
ACTAAAGAACACTTTGGACATCTCACAAATTTGACATACCTTGAATTGAGTATAAATAAA
ATTCAAAATTTAGATTCTGATGTTTTTGAGACACTTGTAAATTTGGTTGAATTAAAATTG
TATGAAAATCAAATTTTATCATTACCAGTGGGAATTTTTGATAATCTGGCAAAACTTGAA
ATCATTAATTTAGGAGGTAATCAATTGACTACTCTTGATGATAACATTTTCGAGCATAAT
AATGAATTAAAAAAAATTTGGCTTTCTCATAATAAAATTTCGAAACTTAATATAAAAGTT
TTTGAGAACACACGAAAAGCTTTAATTATAAATCTACAAAAAAATATTTGTATTGATCAT
GAGTTTGGTTATTCTACAGCATCTAAACCATTGAGTCAATATGATATTAATAAACTTAAA
AATGATTTAAAGAATAAATGCTCTTAA
>g15589.t1 Gene=g15589 Length=348
MKANIVLLLLLISITLVSANENSTKEFIDGEVLDTRCCYWPGDFLVFRDFNTFKVKDDIT
IESNDAEILPKFKSDKIEKVELNSCFVICGFCGCSKNDSNIHNLPIKLNEVFPNLYAYVV
KYTKVKRLKHKNFKNLNKLEYLTIEMSLVSKINDDAFDDLTELKALSLIYNKIHNLSPRL
LKNTLKLERINLQGNKITNITKEHFGHLTNLTYLELSINKIQNLDSDVFETLVNLVELKL
YENQILSLPVGIFDNLAKLEIINLGGNQLTTLDDNIFEHNNELKKIWLSHNKISKLNIKV
FENTRKALIINLQKNICIDHEFGYSTASKPLSQYDINKLKNDLKNKCS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g15589.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 83 | 213 | 1.2E-18 |
| 8 | g15589.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 214 | 341 | 9.1E-22 |
| 4 | g15589.t1 | PANTHER | PTHR45842 | SYNAPTIC ADHESION-LIKE MOLECULE SALM | 85 | 254 | 3.6E-37 |
| 3 | g15589.t1 | PANTHER | PTHR45842 | SYNAPTIC ADHESION-LIKE MOLECULE SALM | 187 | 306 | 3.6E-37 |
| 2 | g15589.t1 | Pfam | PF13855 | Leucine rich repeat | 116 | 173 | 1.9E-7 |
| 1 | g15589.t1 | Pfam | PF13855 | Leucine rich repeat | 186 | 245 | 1.9E-12 |
| 11 | g15589.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 12 | g15589.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 13 | g15589.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 14 | - |
| 14 | g15589.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 10 | g15589.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 348 | - |
| 28 | g15589.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 162 | 182 | 5.895 |
| 31 | g15589.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 186 | 207 | 6.711 |
| 27 | g15589.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 210 | 231 | 7.419 |
| 26 | g15589.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 234 | 255 | 6.18 |
| 29 | g15589.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 258 | 279 | 6.796 |
| 30 | g15589.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 282 | 303 | 6.849 |
| 16 | g15589.t1 | SMART | SM00369 | LRR_typ_2 | 160 | 183 | 5.5 |
| 25 | g15589.t1 | SMART | SM00365 | LRR_sd22_2 | 160 | 178 | 200.0 |
| 21 | g15589.t1 | SMART | SM00369 | LRR_typ_2 | 186 | 207 | 210.0 |
| 18 | g15589.t1 | SMART | SM00369 | LRR_typ_2 | 208 | 231 | 0.33 |
| 24 | g15589.t1 | SMART | SM00365 | LRR_sd22_2 | 208 | 226 | 10.0 |
| 19 | g15589.t1 | SMART | SM00369 | LRR_typ_2 | 232 | 255 | 0.012 |
| 23 | g15589.t1 | SMART | SM00365 | LRR_sd22_2 | 232 | 258 | 190.0 |
| 17 | g15589.t1 | SMART | SM00369 | LRR_typ_2 | 256 | 279 | 0.0013 |
| 22 | g15589.t1 | SMART | SM00365 | LRR_sd22_2 | 280 | 306 | 67.0 |
| 20 | g15589.t1 | SMART | SM00369 | LRR_typ_2 | 282 | 303 | 200.0 |
| 5 | g15589.t1 | SUPERFAMILY | SSF52058 | L domain-like | 92 | 315 | 6.8E-38 |
| 7 | g15589.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 15 | g15589.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 6 | g15589.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 19 | - |
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