General information for g13455.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13455 is located on chr_1: 30233159..30233779 (- 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 | g13455 | g13455.t5 | isoform | g13455.t5 | 30232652 | 30233779 |
| chr_1 | g13455 | g13455.t5 | exon | g13455.t5.exon1 | 30232652 | 30233099 |
| chr_1 | g13455 | g13455.t5 | TTS | g13455.t5 | 30232654 | 30232654 |
| chr_1 | g13455 | g13455.t5 | cds | g13455.t5.CDS1 | 30233074 | 30233099 |
| chr_1 | g13455 | g13455.t5 | exon | g13455.t5.exon2 | 30233171 | 30233523 |
| chr_1 | g13455 | g13455.t5 | cds | g13455.t5.CDS2 | 30233171 | 30233523 |
| chr_1 | g13455 | g13455.t5 | exon | g13455.t5.exon3 | 30233727 | 30233779 |
| chr_1 | g13455 | g13455.t5 | cds | g13455.t5.CDS3 | 30233727 | 30233779 |
| chr_1 | g13455 | g13455.t5 | TSS | g13455.t5 | 30233862 | 30233862 |
Sequences
>g13455.t5 Gene=g13455 Length=854
ATGTTATCAATCACAAAGATTTTTCAAGCGACAAGATCTATTATAAATCCAAGGATCGCT
TGTCAATTTCATTTCGCAAACACACAATCGGCATCACTGGAAGAAAAATTAGGGCTCCCA
CCGAGACCAAAAAGACCGCTTACCCCATTCTTTCGTTTTCTTGTAGATAATAGACCAAAA
ATTGCAAAAGAAAATCCCAATTTAAAGCCAGTGGATTTGATACAGTTGTGTGCAAAGAAA
TACGCTGACATTGACTCTGAAGTTAGAAACAAATACCATGAAGAATTTTTAAAAGAACAA
GAAGTTTATCTTAAGAAACGTTCTGCATATGAGAATAGTTTATCAGATGAACAAAAGTTT
GAAATCGCCAATGCCAAACAAGAGAAGCAAGACAAGAAATTGAAAAAAATTACGAGAAAA
TGGCAAACCTAAAAAGCCTGCTTCAGCATATTTGAGGTTTTTAAACGACACCTCAGCACA
TCATCGAGAACCAAATCAAAGTTACAGAGACTATATAATTTCTGTGGCAGAAAAATGGAA
AAATTTACCAGAAGATAAAAAGCAGGTCTATATAAAAGCATCTTTGAAAGACCATGACGC
CTATAAACAGGAAATTTCCAAGTGGGAATTAAAAATGATACGCTTAGGTAACACCGATTT
AGTTCGTGAAAAATCTGCGATTAAAGATGTTTCAAAACCAAGAGCTCGTGGAAGCAAGTT
TAAGTCTCGTTCAGTCTCATCTGACTCAGATTAAATATCTACCTACCTAGTATTTTTCTC
AATCATCATTATTGTCAGATGAAAATGCTAAAGTGATTGCGATTAATAAAAACCATTGGA
CATTTCCTATTGAA
>g13455.t5 Gene=g13455 Length=143
MLSITKIFQATRSIINPRIACQFHFANTQSASLEEKLGLPPRPKRPLTPFFRFLVDNRPK
IAKENPNLKPVDLIQLCAKKYADIDSEVRNKYHEEFLKEQEVYLKKRSAYENSLSDEQKF
EIANAKQEKQDKKLKKITRKWQT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13455.t5 | CDD | cd01390 | HMGB-UBF_HMG-box | 43 | 108 | 0.000 |
| 6 | g13455.t5 | Gene3D | G3DSA:1.10.30.10 | DNA Binding (I) | 38 | 142 | 0.000 |
| 2 | g13455.t5 | PANTHER | PTHR48112:SF1 | TRANSCRIPTION FACTOR A, MITOCHONDRIAL | 20 | 135 | 0.000 |
| 3 | g13455.t5 | PANTHER | PTHR48112 | HIGH MOBILITY GROUP PROTEIN DSP1 | 20 | 135 | 0.000 |
| 1 | g13455.t5 | Pfam | PF00505 | HMG (high mobility group) box | 43 | 111 | 0.000 |
| 7 | g13455.t5 | ProSiteProfiles | PS50118 | HMG boxes A and B DNA-binding domains profile. | 43 | 111 | 13.171 |
| 5 | g13455.t5 | SMART | SM00398 | hmgende2 | 42 | 112 | 0.000 |
| 4 | g13455.t5 | SUPERFAMILY | SSF47095 | HMG-box | 37 | 118 | 0.000 |
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.
