General information for g11391.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ryanodine receptor.
Parent gene
- The parent gene g11391 is located on chr_1: 15928058..15929198 (+ 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 | g11391 | g11391.t6 | isoform | g11391.t6 | 15927685 | 15929198 |
| chr_1 | g11391 | g11391.t6 | exon | g11391.t6.exon1 | 15927685 | 15928058 |
| chr_1 | g11391 | g11391.t6 | cds | g11391.t6.CDS1 | 15927711 | 15928058 |
| chr_1 | g11391 | g11391.t6 | exon | g11391.t6.exon2 | 15928679 | 15929198 |
| chr_1 | g11391 | g11391.t6 | cds | g11391.t6.CDS2 | 15928679 | 15928687 |
| chr_1 | g11391 | g11391.t6 | TTS | g11391.t6 | 15929278 | 15929278 |
| chr_1 | g11391 | g11391.t6 | TSS | g11391.t6 | NA | NA |
Sequences
>g11391.t6 Gene=g11391 Length=894
TTGTTTTGGCTTTCTGTATCAACTTTATGCTTTTATTCTATAAAGTAACTACATTTGGTG
AAGAAAATGATGGTTCTGGTGATAGTGAATTAAGCGATTTAGGTTCAGCTATGGGTTCTG
GTTCTGGTGCGGGAATTGATTTGGGCAGTGCAGAAGGGTCCGGTGAAACAGACGAAGAAG
ATCCTCTTGAGTTGGTTCAAGTTGATGAAGCATACATTGAACATGTCATGAGATTTGCAG
CAGCTTTACACAGTCTGGTTTCATTGTGCATGCTTATTGCTTATTACCATTTGAAAGTTC
CACTTGCTATTTTCAAACGTGAAAAAGAAATTGCTCGTCGTTTGGAATTTGATGGTCTTT
TTATTGCTGAACATCTTATATAAGGTGTAAGAGCTGGTGGTGGTATTGGTGATGAAATAG
GAGATCCAGACGGAGATGATTATGAAGTTTATCGTATAATTTTCGATATTACATTCTTCT
TCTTCGTTATTGTCATCTTGTTGGCCATCATTCAAGGTTTGATCATTGATGCTTTTGGTG
AGCTTCGTGATCAATTAGAATCAGTAAAAGAAGACATGGAGTCGAATTGCTTTATCTGTG
GCATAGGAAAAGACTACTTTGATAAAGTTCCTCATGGATTTGATACGGTAAGATATAAGA
AAATGTTTAATATATTTTATATTTGATAAATTATTATTATAGCACGTTGCACAAGAACAT
AATCTAGCAAATTACATGTTCTTCCTGATGCACTTGATTAATAAACCGGATACAGAATAT
ACGGGTCAAGAGACTTATGTGTGGAACATGTATCAACAGCGCTGTTGGGATTTCTTCCCT
GTTGGTGATTGCTTTAGGAAGCAATATGAAGATGAACTTGGTGGAAGCCAGTAA
>g11391.t6 Gene=g11391 Length=118
MLLFYKVTTFGEENDGSGDSELSDLGSAMGSGSGAGIDLGSAEGSGETDEEDPLELVQVD
EAYIEHVMRFAAALHSLVSLCMLIAYYHLKVPLAIFKREKEIARRLEFDGLFIAEHLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11391.t6 | PANTHER | PTHR12864:SF53 | RYANODINE RECEPTOR 44F-LIKE PROTEIN | 1 | 116 | 1.1E-32 |
| 3 | g11391.t6 | PANTHER | PTHR12864 | RAN BINDING PROTEIN 9-RELATED | 1 | 116 | 1.1E-32 |
| 1 | g11391.t6 | Pfam | PF06459 | Ryanodine Receptor TM 4-6 | 1 | 95 | 1.8E-21 |
| 5 | g11391.t6 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 69 | - |
| 6 | g11391.t6 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 70 | 89 | - |
| 4 | g11391.t6 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 90 | 118 | - |
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:0005219 | ryanodine-sensitive calcium-release channel activity | MF |
| GO:0016021 | integral component of membrane | CC |
| GO:0006874 | cellular calcium ion homeostasis | BP |
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.
