General information for g11236.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11236 is located on chr_1: 14846104..14847212 (+ 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 | g11236 | g11236.t7 | isoform | g11236.t7 | 14845770 | 14847123 |
| chr_1 | g11236 | g11236.t7 | exon | g11236.t7.exon1 | 14845770 | 14845807 |
| chr_1 | g11236 | g11236.t7 | exon | g11236.t7.exon2 | 14845914 | 14846038 |
| chr_1 | g11236 | g11236.t7 | exon | g11236.t7.exon3 | 14846104 | 14847123 |
| chr_1 | g11236 | g11236.t7 | cds | g11236.t7.CDS1 | 14846175 | 14846360 |
| chr_1 | g11236 | g11236.t7 | TTS | g11236.t7 | 14847140 | 14847140 |
| chr_1 | g11236 | g11236.t7 | TSS | g11236.t7 | NA | NA |
Sequences
>g11236.t7 Gene=g11236 Length=1183
ACTGCTGGACAAGAGCGATTCAGAACAATAACAAACACATATTACAGAGGAACACACGGT
GTGATTGTTGTGTACGATGTTACAAATGGCGAATCGTTTGCTAATGTAAAGAGGTGGCTT
CAAGAAATTGACTCTAATTGTGAAGTTGTAAATAAAGTGCTTGTTGGAAACAAAAATGAT
GATCCGCAGAGGAAGGTTGTTCTAACCGAAGACGCACAACGATTTGCCGAGCAAATGGGA
ATACCATTATATGAGACATCCGCCAAAGATAATTTGAATGTAGAAGAAATGTTCTTAGCA
ATAACGGAAAAAGTTCTGCGTCATAAAAAACAGACTCAGCGTCAACAGAATGATCAGAAC
GATGATCGAATTAAAATAAATAATACAAGTGGCATTAAGAAGAAGAAAAAATGTTGCTAG
TGAAATTGATTCTTTTGTCTTCAACATACATTTAAACAATATAAACATATATTTTTATGA
GAAAACGAGCAGCGAGAAGCAGAAAATAACTATTGGCATGCAAAGATGAGTGTGTGATTA
TCATATATGATATTTAATAGTAGTGATGAGCTAGCCGCCATACTGGGTGGATGCATCATA
TTTCAAATGCAGCATTACAAACAAAAATTATCTCATACTTGATGACTTTATTTCAATTTT
TGCGACTGTAAACAATTTTTCCCCTGTGTTTGTCTATATACATTTAATAAATACTTTGAT
AATTGTTTAAAATTATGAGTAGAAAATGTAGTAACACTATTAGATGAAGGACAGACCATA
AAAATTTTCAGACGATCTTTCTATTTATTGCATGCATATCAAGTGATCAATTCATTAATT
CCAAATTATAGTATTCCTTAAATAATTAGGGAATGATGAGATTTTGAGTCAATATAACTT
CCATTCCTTATATTTCTACATTATCTGAAATAAATTTCAAATTTACTAATAATCCTTTTT
GCATTTCTATATGTTCTATATGTGTGTGGAAAAAACAGGTATTCACTTAAAATCAAAAAA
GAAAAGTTTTGTTATCCATACTCAAACATGATTATCAAATTTTTAATGTAAATGAAACTT
CAGTAAAAGAATCAATTAAATGAGGAGAAAATCAATTTATATATATTTAAAATGAAGAAG
AAAAAAGTTTGATACACAAATCAAGTTAAATTTACAAATAAAA
>g11236.t7 Gene=g11236 Length=61
MGIPLYETSAKDNLNVEEMFLAITEKVLRHKKQTQRQQNDQNDDRIKINNTSGIKKKKKC
C
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11236.t7 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 61 | 2.9E-10 |
| 4 | g11236.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 30 | 61 | - |
| 1 | g11236.t7 | PANTHER | PTHR47977 | LD21953P-RELATED | 1 | 61 | 3.3E-12 |
| 2 | g11236.t7 | PANTHER | PTHR47977:SF29 | RAS-RELATED PROTEIN RAB-35 | 1 | 61 | 3.3E-12 |
| 6 | g11236.t7 | ProSiteProfiles | PS51419 | small GTPase Rab1 family profile. | 1 | 61 | 8.823 |
| 3 | g11236.t7 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 2 | 49 | 8.8E-7 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
