General information for g10954.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10954 is located on chr_1: 12996310..12997205 (+ 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 | g10954 | g10954.t10 | isoform | g10954.t10 | 12996310 | 12997205 |
| chr_1 | g10954 | g10954.t10 | exon | g10954.t10.exon1 | 12996310 | 12996902 |
| chr_1 | g10954 | g10954.t10 | cds | g10954.t10.CDS1 | 12996792 | 12996902 |
| chr_1 | g10954 | g10954.t10 | exon | g10954.t10.exon2 | 12996963 | 12997205 |
| chr_1 | g10954 | g10954.t10 | cds | g10954.t10.CDS2 | 12996963 | 12997205 |
| chr_1 | g10954 | g10954.t10 | TTS | g10954.t10 | 12997495 | 12997495 |
| chr_1 | g10954 | g10954.t10 | TSS | g10954.t10 | NA | NA |
Sequences
>g10954.t10 Gene=g10954 Length=836
GAATTGAATTGTGGTCTATGTCGAATGATATTCTTTTTGATAATATTGTTGTAACTGATG
ATGAAACTCACGCCTATGAATGGGCTCAACACACATATGATCTCAAACGCAAACATTTAG
ATAAGCAAGCTGTAAGTAGACCTATAAAATCTTTATTTTTCATTAAAAATTTCTTTTTCT
CATAAAACAATGAAAATAAGGGTACGTTTTGGGAACGAATGATGACTCAAATGAATTATA
AACCTGGGTATTATCTCAGTTACTTTATTTATTGTATGATACCAGTTACAATTTATATAT
GGTATCTTTGGAAACGAAAAAATGACGACTATATTGATGAGGTATTTTAGAATGTTGATG
TTCTAAAATTTGTCATCGCTTGTTCCTTTTTTTTTTTTGAATATTGTATATATCATATAT
ATATATACTGTAGTTAATAAATATTGCTAAAAAATTTGTTACAGGAATCTTTCGTTCAAA
AAATGAAAAAGATAGTAAATGAAAATCCTTGGATAGTAGCGCTATTAGTAGTTGTAATTG
GCTTGCCAGTTTCAATTATTTTGTATATGCTATGCTCCTCTTCACCAAAGAAGGTTGACG
ATTCCAAAAAGACTGATGCAGTTATTGATGATACTTACGATGAACCGCAAGTAAAAGATC
GAAGAAGTAAATTAGATCTCAATGAGCCTGAAGGTGAAACTGAAGAAGCGGCAGTAGAAG
GGGAGGAAATAAGCAATCAAGAAGCTGAAGAAGAAGAACCTGAGATAACACAAGTTACTG
AGGAAATTAAATCTAGTGAACCAATTACAAGAAAGCGAAAAACGCGAAAAGAATAA
>g10954.t10 Gene=g10954 Length=117
MKKIVNENPWIVALLVVVIGLPVSIILYMLCSSSPKKVDDSKKTDAVIDDTYDEPQVKDR
RSKLDLNEPEGETEEAAVEGEEISNQEAEEEEPEITQVTEEIKSSEPITRKRKTRKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10954.t10 | Coils | Coil | Coil | 115 | 117 | - |
| 3 | g10954.t10 | MobiDBLite | mobidb-lite | consensus disorder prediction | 35 | 117 | - |
| 2 | g10954.t10 | MobiDBLite | mobidb-lite | consensus disorder prediction | 36 | 70 | - |
| 4 | g10954.t10 | MobiDBLite | mobidb-lite | consensus disorder prediction | 71 | 96 | - |
| 6 | g10954.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 8 | g10954.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 30 | - |
| 7 | g10954.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 31 | 117 | - |
| 1 | g10954.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 10 | 32 | - |
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.
