General information for g13345.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13345 is located on chr_1: 29387301..29387686 (+ 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 | g13345 | g13345.t7 | TSS | g13345.t7 | 29385858 | 29385858 |
| chr_1 | g13345 | g13345.t7 | isoform | g13345.t7 | 29386776 | 29387686 |
| chr_1 | g13345 | g13345.t7 | exon | g13345.t7.exon1 | 29386776 | 29387195 |
| chr_1 | g13345 | g13345.t7 | cds | g13345.t7.CDS1 | 29386941 | 29387195 |
| chr_1 | g13345 | g13345.t7 | exon | g13345.t7.exon2 | 29387296 | 29387686 |
| chr_1 | g13345 | g13345.t7 | cds | g13345.t7.CDS2 | 29387296 | 29387400 |
| chr_1 | g13345 | g13345.t7 | TTS | g13345.t7 | 29387787 | 29387787 |
Sequences
>g13345.t7 Gene=g13345 Length=811
CAAGATCGACCAGCGCCAGTTGGTGGAAACGAACAAAGTGGTGGCGGTGGTGGCAATATT
GGTGCTGCTTTGGATCGATCATCGAATTTAGCAAGCAGTGGTGAAAGTGGTGGTAATGAT
GAAAGTCCACTTGCCTTCCTTCGAAGACAAGCTCAATTTCAACAAATGAGAAATGTAATT
CAACAAAATCCTGAAATGTTGAATGCTGTTCTACAACAAATTGGTCAAACAAATCCAGCA
CTATTGCAACTTATTTCAGAAAATCAAGAAGCATTTGTTAACATGCTTAATGAGTCAGAA
GATGGTCGTCAAGCGCCTAGTGGTGGAAATGATGATGATGATAGAGGAAATTTCGGTGGA
TTGTTAGACGTAGGTTCTGTGCCCGAATTTACACAACAAGATCGTGAAGCCATTGAAAGA
CTTACATTGCTTGTGAAAAAAATGAAAATTTGGCCGCCAACTTTTTACTTTCACAGACCT
TTGATGACTAAAAATCTGCTTCTATGTTTCGCCATCACTGCTTAACTTTCTTTTTTATGA
TGATAATAATAAAGTTAGAAAGAGAAGACGAAATTCAACACCAAACAACACTTAAATAAT
TATCGTGAATTCATCATTACTATTGTTGATGGCATAACTATACAGACATCAAATCTTTTT
TTTTTCATTTTTCCCTTGTCAAGACATTGCTTCTTGTACATAAAAAGCAAGAAAAAGAAC
TTGATATAAATATGCTCACACATACACATACTACACACATGCATCTTTTGCTCTATGTTT
TTATTTTATAATATTTTGTTAATTATGAACT
>g13345.t7 Gene=g13345 Length=119
MRNVIQQNPEMLNAVLQQIGQTNPALLQLISENQEAFVNMLNESEDGRQAPSGGNDDDDR
GNFGGLLDVGSVPEFTQQDREAIERLTLLVKKMKIWPPTFYFHRPLMTKNLLLCFAITA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13345.t7 | Gene3D | G3DSA:1.10.10.540 | - | 1 | 45 | 9.4E-20 |
| 7 | g13345.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 43 | 63 | - |
| 2 | g13345.t7 | PANTHER | PTHR10621 | UV EXCISION REPAIR PROTEIN RAD23 | 1 | 89 | 2.5E-17 |
| 3 | g13345.t7 | PANTHER | PTHR10621:SF52 | RAD23 HOMOLOG A, NUCLEOTIDE EXCISION REPAIR PROTEIN A | 1 | 89 | 2.5E-17 |
| 4 | g13345.t7 | PRINTS | PR01839 | DNA repair protein Rad23 signature | 15 | 37 | 1.0E-11 |
| 5 | g13345.t7 | PRINTS | PR01839 | DNA repair protein Rad23 signature | 73 | 89 | 1.0E-11 |
| 1 | g13345.t7 | Pfam | PF09280 | XPC-binding domain | 1 | 44 | 7.4E-19 |
| 6 | g13345.t7 | SUPERFAMILY | SSF101238 | XPC-binding domain | 1 | 51 | 2.88E-17 |
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:0043161 | proteasome-mediated ubiquitin-dependent protein catabolic process | BP |
| GO:0003684 | damaged DNA binding | MF |
| GO:0006289 | nucleotide-excision repair | BP |
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.
