General information for g11836.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11836 is located on chr_1: 18685911..18687152 (+ 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 | g11836 | g11836.t5 | isoform | g11836.t5 | 18685911 | 18687152 |
| chr_1 | g11836 | g11836.t5 | exon | g11836.t5.exon1 | 18685911 | 18687152 |
| chr_1 | g11836 | g11836.t5 | cds | g11836.t5.CDS1 | 18686152 | 18686409 |
| chr_1 | g11836 | g11836.t5 | TTS | g11836.t5 | 18687146 | 18687146 |
| chr_1 | g11836 | g11836.t5 | TSS | g11836.t5 | NA | NA |
Sequences
>g11836.t5 Gene=g11836 Length=1242
TCTAGTATTGATATCTCTTAGTTGGATTTGCAATTTACATCGTGTTGGTTCATTAGTATT
AATTGTACATGATTTTGCTGACATATTTTTGGAAGCTGCAAAGTTTTTGAAATATGCAAG
TCTACAGAAAGCTTGCGATATTGTTTTTGGAGTTTTCACAGTGTCTTGGCTTGTAACAAG
ATTAGGATTATATCCGAGAATAATTTATAGTTCTACAATAGAAGCACCGCAAATTTTACC
AATGTATCCTGTTTATTACATATTTAATTCATTACTTATTATGCTTCTCGTGCTTCATCT
CATATGGACTTATATGATCTTGCAAGTTGTAGTGCAAACAATTAAAGCTGGACAAATGGA
AGGCGATGTTCGTTCAAGTTCTGATGAAGTTTCTGATAGTTCTGAAAATCGCGATAAACC
TATGCATAATGGGAATGCTGAATCACCTAAAAAAGAAAATCATTCTTACAACAACACATC
ACCTAAAAAGATAAATTGATTTGTAAATAATCAATTATTCACATTTCTTCATTCCAAAAT
ATTTTGGAGAATGATCATAACAAGATGGGTATTTCATTTCAATCAGTTTCGAAGATCTAA
TTTTACACTATCTAGAATTTTGATTATTAACTAAGAGTTTCAAACAAAAAAGTCTCAGTT
TTATTAAAAAGCAGTTAGAAAAGATCGAATAATTACGTATTTTAGGGAATTTGAAATGTT
TAAAATGAATGAATGAAAGACTTTGATTCTCTAGTGAAAGATATTTTTTTACCTATCTTT
ATTGGTAGATAAAACATTAAATGATGATTAACCTAAGTGTAAAAACTAAAAAGATTTTAC
CAAGATATTACTGTTGTAGAAATCAATTTTTTTAATCATAAATCTCTTATATCCTAAAAT
ACTAAATCTTTAAAAAGTAATGAGAAAATATTTTTAGATTGCTTATTTGCAATTTAAAAG
AAGAAAATGAGGCGACAAACAACAGAATGATTAAAAACCATATCTACATTTGATTGTTTT
ATTAGTTTTTTTATCTGCTTTAAGAAACGAACCAAATTTATTGTTCTTAAGCTTATTTGT
GACTTTCATTTGAAAGTTTTTGTTGATCAGTTATGTATGTTAGTCTAATTAATTGATCTA
CTAATTCATTATTGCATTGAACAATTTTTATATTATTAAAATCATTAGAACTAATTAATG
TGTCATTTTTTGGAATAAATATTTTTTGCTAAGTTTAAACAA
>g11836.t5 Gene=g11836 Length=85
MYPVYYIFNSLLIMLLVLHLIWTYMILQVVVQTIKAGQMEGDVRSSSDEVSDSSENRDKP
MHNGNAESPKKENHSYNNTSPKKIN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g11836.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 38 | 85 | - |
| 5 | g11836.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 45 | 69 | - |
| 6 | g11836.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 70 | 85 | - |
| 1 | g11836.t5 | PANTHER | PTHR12560 | LONGEVITY ASSURANCE FACTOR 1 LAG1 | 2 | 73 | 8.9E-14 |
| 2 | g11836.t5 | PANTHER | PTHR12560:SF56 | LD18904P | 2 | 73 | 8.9E-14 |
| 9 | g11836.t5 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 10 | g11836.t5 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 27 | - |
| 8 | g11836.t5 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 28 | 85 | - |
| 7 | g11836.t5 | ProSiteProfiles | PS50922 | TLC domain profile. | 1 | 35 | 8.207 |
| 3 | g11836.t5 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 4 | 26 | - |
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:0016021 | integral component of 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.
