General information for g16486.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16486 is located on chr_4: 9672686..9673938 (- 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 | g16486 | g16486.t3 | TTS | g16486.t3 | 9671993 | 9671993 |
| chr_4 | g16486 | g16486.t3 | isoform | g16486.t3 | 9672073 | 9673938 |
| chr_4 | g16486 | g16486.t3 | exon | g16486.t3.exon1 | 9672073 | 9672151 |
| chr_4 | g16486 | g16486.t3 | cds | g16486.t3.CDS1 | 9672073 | 9672151 |
| chr_4 | g16486 | g16486.t3 | exon | g16486.t3.exon2 | 9672209 | 9672578 |
| chr_4 | g16486 | g16486.t3 | cds | g16486.t3.CDS2 | 9672209 | 9672578 |
| chr_4 | g16486 | g16486.t3 | exon | g16486.t3.exon3 | 9672680 | 9673938 |
| chr_4 | g16486 | g16486.t3 | cds | g16486.t3.CDS3 | 9672680 | 9673304 |
| chr_4 | g16486 | g16486.t3 | TSS | g16486.t3 | 9673961 | 9673961 |
Sequences
>g16486.t3 Gene=g16486 Length=1708
ATGAAGTTTGCAGTTGGAATTTTTATTCTTTCACTTTTTGGTTCTTCTTTTGCTCAATCT
ATTGATTGTGTTTATTCAACTACAGTTATTAATAATGTTCAACATTATGCTTGTAATTTA
GAAATTGAAAATCCAAATGGTTTTGATGAATTCCAGGAAATTATAGGCACGCATTTAGAA
GGTATAAAATTTTGTTTCTGTTGATATTTTTACCAAAAATTTTATAAAATTGAATGACAA
TTTTTTTATCAGTTAAATCTTAAAATTAACAAGCTTAAATTCTTTGTTTTTATACCAAAA
ACCTTCAAATTTAACTTTTCTAGGTCGAACAAATGCTGATGTCACTTATATTTCTCATTA
TCATGGTTCAACAACAATCGTCCCACAAATCATTTGTAGCCAATTTCCCAACCTCGAAAT
TATTGATTTTGATGGTTTTGGTGTCAGAACTTTAACTGATACTTCATTTGGTGGCTGTCG
AAATGCAAGATCAATAAATTTATTCACAAATCAAATCAGTGAAATTTCAGAAAACGCTTT
TGCAAATAATCCAAATTTGACTTTTATCGATCTCAGTGGAAATCAATTGCGAACTCTTCA
TGTAAATTTATTTGTTAATCAACAACAACTTGATATGCTTGAACTTAACAATAATTCATT
TACTGAAAATTTCCCTGCAGGACTTTTTAGAAATTTAGTCAATTTGAGGATGCTTTTATT
GAATGAATGCAGATTAACAGCAATAAACCCAAATTGGTTCACAAATCTTGGAAATTTATT
CATGTTGAATATGTTCAGAAATGAAATTCTTGAAATTAATGAAGATGCATTTGTTGGACT
TGAAAATTTGAATATTTTGAATTTAAATCATAATTTTATTCAAACAATTCATCCAAATGC
TTTCAGTTCACTTGGCAATCTTCGTGTGATTTATATGGAAGACAACCAAATTTCTGAACT
TCCTATTGGTGTTTTTGCTCCATTTACTGCAATAAGCTATGTTGATTTGAGACTAAATAG
AATCAAAACTGTAAATAGAGACATTTTTGGATCATTGAGTGCTTTAGGAACACTTGACTT
AGATTTTAATGTTGTTAATGCAATGGATGAAAGAATTTTTAGAGAAGCTGATGCTCTTTA
TCTTTTCTATTTTGGAAATAACTTGTGTGCAAGCGGATTTTTCAATAACTTTGTTGGAAA
TCGTGATTTTTATATTGGAAGATTGTCAAGATGCTTTAGAAATTTTGAATTTACTGTTGA
AATAACAACAGAAAGTGACAATCCAAACTATCAATTTTTCTCTGGTCCTGCACCTGGAAT
TCAATTGCGTGTAATGACAGCAAATGAAGTTCACATTGCATTGACACCATTCAATTTTCC
ATGGACACCAATGATTGAAATTATTATTGGTGCAGCAAACAACACACGATCAATTGTTAG
ACGCAATCAAGAAACTGATGTAGCTGTTGTACCAACACCAGGAATTTTGAATGAAAACTT
TTGGAATGGATTTAGAATTACTTGGGCAAATCATATTGTGCTGATATTTAGAGAAGGTGA
TCAATTTCCTTTCCTAGCTTTCACTATGATGGACTTTTTCAATGTAAACTTTTATGGATT
AAGAACACCTGAAAACAGAGCTTCATGGGTTATTCAACCAGTTGATGCTGATGAAATTGG
TGTATCTCCTGCTGCTCTTTCAAATTAA
>g16486.t3 Gene=g16486 Length=357
MLELNNNSFTENFPAGLFRNLVNLRMLLLNECRLTAINPNWFTNLGNLFMLNMFRNEILE
INEDAFVGLENLNILNLNHNFIQTIHPNAFSSLGNLRVIYMEDNQISELPIGVFAPFTAI
SYVDLRLNRIKTVNRDIFGSLSALGTLDLDFNVVNAMDERIFREADALYLFYFGNNLCAS
GFFNNFVGNRDFYIGRLSRCFRNFEFTVEITTESDNPNYQFFSGPAPGIQLRVMTANEVH
IALTPFNFPWTPMIEIIIGAANNTRSIVRRNQETDVAVVPTPGILNENFWNGFRITWANH
IVLIFREGDQFPFLAFTMMDFFNVNFYGLRTPENRASWVIQPVDADEIGVSPAALSN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g16486.t3 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 1 | 54 | 0.0000 |
| 13 | g16486.t3 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 55 | 194 | 0.0000 |
| 3 | g16486.t3 | PANTHER | PTHR24366 | IG(IMMUNOGLOBULIN) AND LRR(LEUCINE RICH REPEAT) DOMAINS | 2 | 126 | 0.0000 |
| 4 | g16486.t3 | PANTHER | PTHR24366 | IG(IMMUNOGLOBULIN) AND LRR(LEUCINE RICH REPEAT) DOMAINS | 55 | 178 | 0.0000 |
| 1 | g16486.t3 | Pfam | PF13855 | Leucine rich repeat | 55 | 106 | 0.0000 |
| 2 | g16486.t3 | Pfam | PF12248 | Farnesoic acid 0-methyl transferase | 240 | 331 | 0.0000 |
| 15 | g16486.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 23 | 44 | 4.6930 |
| 17 | g16486.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 47 | 68 | 5.4250 |
| 16 | g16486.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 71 | 92 | 7.4730 |
| 14 | g16486.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 95 | 116 | 6.4030 |
| 10 | g16486.t3 | SMART | SM00369 | LRR_typ_2 | 21 | 44 | 4.6000 |
| 11 | g16486.t3 | SMART | SM00369 | LRR_typ_2 | 45 | 68 | 39.0000 |
| 6 | g16486.t3 | SMART | SM00369 | LRR_typ_2 | 69 | 92 | 0.0046 |
| 9 | g16486.t3 | SMART | SM00369 | LRR_typ_2 | 93 | 116 | 0.0061 |
| 7 | g16486.t3 | SMART | SM00369 | LRR_typ_2 | 117 | 140 | 220.0000 |
| 8 | g16486.t3 | SMART | SM00369 | LRR_typ_2 | 141 | 164 | 18.0000 |
| 5 | g16486.t3 | SUPERFAMILY | SSF52058 | L domain-like | 2 | 176 | 0.0000 |
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