General information for g434.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Rad51.
Parent gene
- The parent gene g434 is located on chr_3: 3341946..3344349 (- 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_3 | g434 | g434.t2 | TTS | g434.t2 | 3340295 | 3340295 |
| chr_3 | g434 | g434.t2 | isoform | g434.t2 | 3340771 | 3341946 |
| chr_3 | g434 | g434.t2 | exon | g434.t2.exon1 | 3340771 | 3341946 |
| chr_3 | g434 | g434.t2 | cds | g434.t2.CDS1 | 3340848 | 3341231 |
| chr_3 | g434 | g434.t2 | TSS | g434.t2 | 3342723 | 3342723 |
Sequences
>g434.t2 Gene=g434 Length=1176
ATATTTTTTTTTTGAAAAAATATTTTTTTATTACTAATCGCTCTTGTAATATGAATTAAG
ACAAATAAAAATCATTTATTAAAACAAATTATCAACGATATAAACTGCTTCATTATTGCA
TGAACACACAATGCGTGACTGCTTTGAACAATCAATTGAAGTGATTGATTTACGAAGACC
ACCTAATACAGTTGTGATTGAAATTTTATTTTTTGCTCTTTCTCCATTTAGCCATGAGTT
AATAGTGTCTGCAGAATTTCTATTCTCATAATCATGTGAGACAGTTTGCATCATATTTTG
TGTCCATTTCCATAATTCACCATTTGCTGAAGCAGAAAATAATTTATCAGGTTGAGTCGG
ATGAAACATTAATTCAGTAATTGCAGAATCGTGAGCACAAAGATAAGAAGATGGAAATGA
TGGTTGACGAAGATCGTAAACTGTAATCGCTCCTTCTTCAGATCCAGCTAAAATAATGTG
CTGTTGAGTTGGATGATGTGTGAGACTTGTGACTGCATTGCATTTCTTTTCATCTTCGCA
TGAAATTGCAAAGGTTGCTGTAGGAGTTTTATCTCCTGAGCGTAAATCAAAAGATTTCAT
TATTCCCAGTCGATTTCCTGTGATTAGTTCTTTGTAATTAATAAATCGAATGGCAGTTTG
AGTTACTGAGTCAGTATCATCAATTGTTGTAATGACTTTCTGATTATTGGCTGATATGAC
ATTTATTTTTCCATCTTCACCTATAGTACTTATATTTTCGTCGAAAACTGAAACTCCCAT
GCATAAGGCTGAATCTCCAGTCTTGAATTTGTGTAGATTTTTGAAACTAGCACTTTCTCT
TAATTTGTTCATCTCATTTTTACCAGGATTAATCGAAACAATTGTCATTGAACTTCCAGA
TGATATTGCAAAATTAAAGCGATCTATCTTTTCTAATCCAGTTACTTCTCCTTCAATTGT
CAATTTAGATACTGCCTTAGGAATAAATTCATTCTCAATTTCATCAGCAAATTCATTTTT
TATTAATTTCCAAAATTTCACGTTGTTTTTAATTTCAGATGATCCCGAAATAAAATTAGA
TGCTTCCAATTGTGCTTGACTTTCTTCAACGAATCTTATTTTATTGATGCGCTCCGATAC
AAAAGAACTATTTATTTTAGTCAAATTCTCATTCAT
>g434.t2 Gene=g434 Length=127
MTFIFPSSPIVLIFSSKTETPMHKAESPVLNLCRFLKLALSLNLFISFLPGLIETIVIEL
PDDIAKLKRSIFSNPVTSPSIVNLDTALGINSFSISSANSFFINFQNFTLFLISDDPEIK
LDASNCA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g434.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 37 | - |
| 3 | g434.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 38 | 60 | - |
| 1 | g434.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 61 | 127 | - |
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.
