General information for g16485.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16485 is located on chr_4: 9668742..9670773 (- 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 | g16485 | g16485.t2 | isoform | g16485.t2 | 9668742 | 9670268 |
| chr_4 | g16485 | g16485.t2 | exon | g16485.t2.exon1 | 9668742 | 9668795 |
| chr_4 | g16485 | g16485.t2 | cds | g16485.t2.CDS1 | 9668756 | 9668795 |
| chr_4 | g16485 | g16485.t2 | exon | g16485.t2.exon2 | 9668862 | 9669228 |
| chr_4 | g16485 | g16485.t2 | cds | g16485.t2.CDS2 | 9668862 | 9669228 |
| chr_4 | g16485 | g16485.t2 | exon | g16485.t2.exon3 | 9669389 | 9670268 |
| chr_4 | g16485 | g16485.t2 | cds | g16485.t2.CDS3 | 9669389 | 9670118 |
| chr_4 | g16485 | g16485.t2 | TSS | g16485.t2 | 9670808 | 9670808 |
| chr_4 | g16485 | g16485.t2 | TTS | g16485.t2 | NA | NA |
Sequences
>g16485.t2 Gene=g16485 Length=1301
TCTTTCAGTGGCTGTTCAGACCTTGAATTGTTAAGATTGTGGAACAACAACATTCAAGAA
TTACCAGAAAATACTTTTGATAATAATATAAAACTAACATACTTGGATCTCGATGGAAAT
GGCCTTCAAATAATCCCAGAAGATATTTTTATGAATTTAACTTCATTAAGGGAACTTGAA
TTAAATAACAATCAACTTGAAAAACTTCCAAGTGGAATTTTTAGAACATTAGTGAATTTG
AGATATTTAGATTTGAGCAATAGTCACATAAATCAACTCAATCCACTTTGGTTCGAAAAT
TTGAGAAATTTAATTCAACTCAAACTTTATTTCAATGAATTTCCATCAATTTCCGAAGAA
ATTTTCTCAAATTTAGAAAATTTGGAAACACTCGACATAAGTCAAAATAAACGTGAAAAT
GGAATTGAATTTATCCATGATTTTGCATTTTCTTCATTAATAAATTTGAAATCTTTAACA
ATGAGCAACATGCAGTTAAAAATTCTCAATCCAAATTGGTTCAAAAACACAACAAATTTA
GAAACAGTTTATTTCAATTTCAATCAAATTGATCACATTCCACCTCAAACATTTTCAAAT
CTTCCATTTTTAACTTCTCTGAATTTTTGGTCAAACAATTTAAAAGTTTTGAGAAGAAAT
TCATTTGGAAGAAGTTTGGAAAATTTAAGAATTCTTGATTTAGACAGCAATGAAGTTGAA
GCAATTGATAAAGAAATTATAAATGATGCTGAAGGACTTTTTACATTATATTTTGACTTC
AACATTTGTGCCAGTCGAATGATGGGAAATTTTTTGGTAAATCGTGAAGAATTTATGGAA
GAACTTGAGGAATGTTTTAGAAATGCTGAAATTGCTCATGATTCTTTCACTCTTGAAAAT
CAACCTTTTGAGTTTTCATCGACTTCATTACCAGGAATTAATTTAAAATTTCGATCAGAC
AATGAAGTTCATCTTGCTTTAACACCATTTAATTTCCCATGGACACCAATGATTGAAATT
TTTATTGGTGCTGGCAATAACACAAGGTCAATCATTAGAAGAAATCAAGAAACTGATGTA
GTTACAGTTCCAACTCCAGGAATCATCAGAGCTGATCAATGGAATGGATTTAGAATCACT
TGGGCAAATCATGCAATTCTTGTATGGAGAGAAGGTGAAGAATGGCCTTTCATGGGTTTC
ACAATGACTGACTTTTTTCCTGTCAATTTTTATGGATTAAGAGCACCACACAGTCATGCA
TCATGGTTTATTCTTAGAATTCAATAAAATATTTTAAAAAA
>g16485.t2 Gene=g16485 Length=378
MNLTSLRELELNNNQLEKLPSGIFRTLVNLRYLDLSNSHINQLNPLWFENLRNLIQLKLY
FNEFPSISEEIFSNLENLETLDISQNKRENGIEFIHDFAFSSLINLKSLTMSNMQLKILN
PNWFKNTTNLETVYFNFNQIDHIPPQTFSNLPFLTSLNFWSNNLKVLRRNSFGRSLENLR
ILDLDSNEVEAIDKEIINDAEGLFTLYFDFNICASRMMGNFLVNREEFMEELEECFRNAE
IAHDSFTLENQPFEFSSTSLPGINLKFRSDNEVHLALTPFNFPWTPMIEIFIGAGNNTRS
IIRRNQETDVVTVPTPGIIRADQWNGFRITWANHAILVWREGEEWPFMGFTMTDFFPVNF
YGLRAPHSHASWFILRIQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g16485.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 1 | 90 | 0.000000 |
| 15 | g16485.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 91 | 282 | 0.000000 |
| 5 | g16485.t2 | PANTHER | PTHR46473 | GH08155P | 5 | 133 | 0.000000 |
| 4 | g16485.t2 | PANTHER | PTHR46473 | GH08155P | 89 | 260 | 0.000000 |
| 1 | g16485.t2 | Pfam | PF13855 | Leucine rich repeat | 5 | 63 | 0.000000 |
| 2 | g16485.t2 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 90 | 196 | 0.000000 |
| 3 | g16485.t2 | Pfam | PF12248 | Farnesoic acid 0-methyl transferase | 274 | 365 | 0.000000 |
| 19 | g16485.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 5 | 26 | 7.758000 |
| 22 | g16485.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 29 | 50 | 7.358000 |
| 18 | g16485.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 53 | 74 | 5.710000 |
| 20 | g16485.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 77 | 99 | 5.148000 |
| 21 | g16485.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 129 | 150 | 6.541000 |
| 17 | g16485.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 178 | 199 | 6.026000 |
| 10 | g16485.t2 | SMART | SM00369 | LRR_typ_2 | 3 | 26 | 0.000019 |
| 14 | g16485.t2 | SMART | SM00369 | LRR_typ_2 | 27 | 50 | 4.200000 |
| 13 | g16485.t2 | SMART | SM00369 | LRR_typ_2 | 51 | 74 | 2.500000 |
| 9 | g16485.t2 | SMART | SM00369 | LRR_typ_2 | 75 | 102 | 46.000000 |
| 7 | g16485.t2 | SMART | SM00369 | LRR_typ_2 | 103 | 126 | 37.000000 |
| 11 | g16485.t2 | SMART | SM00369 | LRR_typ_2 | 127 | 150 | 3.700000 |
| 8 | g16485.t2 | SMART | SM00369 | LRR_typ_2 | 151 | 174 | 6.300000 |
| 12 | g16485.t2 | SMART | SM00369 | LRR_typ_2 | 176 | 199 | 3.000000 |
| 6 | g16485.t2 | SUPERFAMILY | SSF52058 | L domain-like | 3 | 213 | 0.000000 |
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