General information for g11304.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11304 is located on chr_1: 15504636..15506200 (- 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_1 | g11304 | g11304.t9 | TTS | g11304.t9 | 15503334 | 15503334 |
| chr_1 | g11304 | g11304.t9 | isoform | g11304.t9 | 15503461 | 15504567 |
| chr_1 | g11304 | g11304.t9 | exon | g11304.t9.exon1 | 15503461 | 15504567 |
| chr_1 | g11304 | g11304.t9 | cds | g11304.t9.CDS1 | 15503461 | 15504357 |
| chr_1 | g11304 | g11304.t9 | TSS | g11304.t9 | NA | NA |
Sequences
>g11304.t9 Gene=g11304 Length=1107
AAGGAGGTTCAATTGAAAGTTGTTAAAGAAGTAACAAGCAATGAGTCAGATGTGTCTGAA
GAATCTGAAGTAAATCGATCAGAACCTGCAACTCCACCAGAAATTCCACGTAAGCAGCAG
GTGACTAACAAGACGCAAGTTAGTAGTCATAACAAGAAAGGTAATGGAAAAGGAAAGAGT
GGTATATTGGTAAATAAGAATGAACCCTTAATGGTCAAGGAACTTGAAGCTGTTGAAGAA
AGCAATCATTTTGTTGAAATACATCCAAAAGATGCAATTGAGATTCATCGTGGAAAAGAA
GAAGAGCAAAAGAGTACTAAGAATTTCAGAGAAAACAAAAAATCTCACAAACAGCAGCAA
TCACAGCAACAAGTTATTAAAGAAACACCTCCGGTTTCTCCGAAAAAAATTCAATCAGTT
AAAGAAGTCAAGGTGAACGATGAAAAGATCATTAAAAAGAAAAAATCTGAACAATTGAAT
TCTCCTATGTCGAAGACTGTTACTGATGGAAATTCAGTGCATATGGTTATTGATGAAACC
GGAATATCTCCATTAATTCGTGAATTAAGCCGTGCAGATTTAACAAAGAATCAAATTCAA
GTTTTGATCGATTTCCTTCTCAACAAGCAATCAGATACGACTGCAAAAGATCCGACTGAG
TGGACCGAAGGAAAATCTGATATAAATCAAAAATTGAGGAAACAGCTTCAAGAAAAAGAA
GCTCAGTTAAAAAATGAACAAGATGCGTTGTCTGGTATGCAAATTAAGTTGAAAGAGTTG
CGTGCTGAATTAAACACGGAAAAAATTCAAAGCAATGCCACATTGAAAGCACATGTAGAA
CAAATTCAAAACTGCAGGTCCGAAATTAAAACTTTGCAATCTGAAATTCTGTTTTTAAAT
GACAAGCATAATAATGAAAAACAGACTTTAAATGCTTCTTTAAAGCAACTGCAAGCTAAA
TTTCTTCAAGTTTCTGAGAGTCTTAAAGCGCAAGAAAGTTTACCAAATTTGCAAAAATTA
CAAAATGATAATCAGATGCTACAACAAGAAATTATCAACAAGAATCAGCAAATTATGGAA
ATAAATGTACTGATAGATCAGAAAGAA
>g11304.t9 Gene=g11304 Length=299
MVKELEAVEESNHFVEIHPKDAIEIHRGKEEEQKSTKNFRENKKSHKQQQSQQQVIKETP
PVSPKKIQSVKEVKVNDEKIIKKKKSEQLNSPMSKTVTDGNSVHMVIDETGISPLIRELS
RADLTKNQIQVLIDFLLNKQSDTTAKDPTEWTEGKSDINQKLRKQLQEKEAQLKNEQDAL
SGMQIKLKELRAELNTEKIQSNATLKAHVEQIQNCRSEIKTLQSEILFLNDKHNNEKQTL
NASLKQLQAKFLQVSESLKAQESLPNLQKLQNDNQMLQQEIINKNQQIMEINVLIDQKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g11304.t9 | Coils | Coil | Coil | 29 | 49 | - |
| 5 | g11304.t9 | Coils | Coil | Coil | 159 | 200 | - |
| 7 | g11304.t9 | Coils | Coil | Coil | 205 | 250 | - |
| 6 | g11304.t9 | Coils | Coil | Coil | 267 | 287 | - |
| 2 | g11304.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 18 | 69 | - |
| 3 | g11304.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 18 | 47 | - |
| 1 | g11304.t9 | PANTHER | PTHR18939 | RIBOSOME BINDING PROTEIN-1 | 9 | 289 | 3.9E-20 |
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:0030176 | integral component of endoplasmic reticulum membrane | CC |
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.
