General information for g11305.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11305 is located on chr_1: 15507731..15527410 (+ 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 | g11305 | g11305.t4 | TSS | g11305.t4 | 15506414 | 15506414 |
| chr_1 | g11305 | g11305.t4 | isoform | g11305.t4 | 15506516 | 15508188 |
| chr_1 | g11305 | g11305.t4 | exon | g11305.t4.exon1 | 15506516 | 15506671 |
| chr_1 | g11305 | g11305.t4 | exon | g11305.t4.exon2 | 15506726 | 15506829 |
| chr_1 | g11305 | g11305.t4 | exon | g11305.t4.exon3 | 15507193 | 15508188 |
| chr_1 | g11305 | g11305.t4 | cds | g11305.t4.CDS1 | 15507384 | 15507731 |
| chr_1 | g11305 | g11305.t4 | TTS | g11305.t4 | NA | NA |
Sequences
>g11305.t4 Gene=g11305 Length=1256
ATGTCACAAAAATCATATACTGCTAGATTAAAACAGGATTATATGAGGTAAATGCAATAA
GATTTGTTAAAAAACATTTTTTTAGACACATCATCCTAAATTACATTGGAGAAAAAATTT
ACGTCTTTTTTTGTTTCTTATCAACAACAAAAATTCACTAAAATCGGATCCTGTACCTTT
CATCAACGCAGAATTTTTGCCTTCAAACATATTGGAGTGGCATTATGTGATTCAAGGGCC
TGTGGACAGCCCATACAGCGGTGGTTATTACCATGGCTCACTGATTTTTAGTAAAGAATA
TCCATTTAAGCCACCTAGTATTTATATATTCACACCCAATGGACGTTTCAAGCCTAACAA
AAGACTATGTCTATCAATCAGTGATTATCATCCAGACACTTGGAATCCTGCTTGGTCTGT
TTCAACAATTCTCACAGGACTATTAAGTATCATGCTAGAAAATACACCTCTCTTGGGAAG
CTGTGAATCAACGACATATGAAAAGAAAAAATTAGCAATTAATTCACTTGAGTTTAATCT
AAAAAATGAAACTTTCAATGAGCTCTTTCCCGATTTAGTTACTGAAATCAAAGCAAAGCT
TGAAAAAATCAATGAAATAAAAAAGCAAAACGAGAAGGAAGCAACTGAAAAAACTGCTAA
CGAAGTTAATCAACTTGATAGCAGCAGCAATAATGGAACGTTCAACTTTTGCTTCAATGT
GATAATTCTGGTTATATTTGGTGTTTTCGTATGTGTAGTACGAAAAGTTCTTTACGAATC
CGGTGATCAAGAAGAATAAAATAGTTGTCATTTGCTGCTATCATCATATATATATATATA
TATACATATATGTATGTTTTTGCGGTTTTATTGGAGAAAAATGTTAGTTTCTATATATGA
TGGTCCAAAGATGGACACTATTAATTTATTATTTGTTCATTATATTTCTTATGAATTAAA
TTGTCAGTAACAATAATATATTATTACATATTTGTAATTTACTTCGATGTATTAAAATAC
TTATATTCCACGATTTTCTGACACTTTTGACGCTTTTTGATTTTATAAACCACATATGAA
TTATTTTTTTTTTTTTTGAAGAAATTAATAAAAGCATTGGGGTAATTATAAAAAAGATCA
AACCACGTATTAAGTATTATTTAGTTCAAAGACAAGATGTCTTATGCTATAATTTCTGTT
ACTTTATTAATTTTCTAGAAGAAAGCAAAAAATAAGGGATATATATTTTTATTATT
>g11305.t4 Gene=g11305 Length=115
MLENTPLLGSCESTTYEKKKLAINSLEFNLKNETFNELFPDLVTEIKAKLEKINEIKKQN
EKEATEKTANEVNQLDSSSNNGTFNFCFNVIILVIFGVFVCVVRKVLYESGDQEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g11305.t4 | Coils | Coil | Coil | 43 | 67 | - |
| 2 | g11305.t4 | Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 1 | 65 | 7.8E-8 |
| 5 | g11305.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 82 | - |
| 6 | g11305.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 83 | 103 | - |
| 4 | g11305.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 104 | 115 | - |
| 1 | g11305.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 81 | 103 | - |
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.
