General information for g2505.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Modifier of mdg4.
Parent gene
- The parent gene g2505 is located on chr_3: 18328646..18333574 (- 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 | g2505 | g2505.t6 | isoform | g2505.t6 | 18326034 | 18327275 |
| chr_3 | g2505 | g2505.t6 | exon | g2505.t6.exon1 | 18326034 | 18326051 |
| chr_3 | g2505 | g2505.t6 | cds | g2505.t6.CDS1 | 18326034 | 18326051 |
| chr_3 | g2505 | g2505.t6 | exon | g2505.t6.exon2 | 18326119 | 18326529 |
| chr_3 | g2505 | g2505.t6 | cds | g2505.t6.CDS2 | 18326119 | 18326475 |
| chr_3 | g2505 | g2505.t6 | exon | g2505.t6.exon3 | 18327189 | 18327275 |
| chr_3 | g2505 | g2505.t6 | TSS | g2505.t6 | 18327308 | 18327308 |
| chr_3 | g2505 | g2505.t6 | TTS | g2505.t6 | NA | NA |
Sequences
>g2505.t6 Gene=g2505 Length=516
AAAGAGTATAACGCTCTGTGAAAATATTAATTGAGTGAAAATTACAAGTGCCACGTTAAT
TAAACTACATTAAAATTGTAGCAAAAGAACGAACAAACTAGAAAGGAATATTGTATAAAG
CGTGAAACGTCCCCAAGAAAAATGGCGGACGAGGAACAATTCTCATTGTGTTGGAATAAT
TTCAACACCAACTTATCGGCTGGCTTTCATGAATCGCTATGCCGCGGTGATCTCGTTGAT
GTAACTTTAGCAGCAGAAGGACAATTGGTGAAGGCACATCGTCTCGTTCTCTCAGTATGT
TCACCATATTTCCGTAAAATGTTTACACAAATGCCCGCAAATCAACATGCATTTGTTTTT
CTCAAAGACGTTAGTTCTACTGCACTTAAAGACTTGATTCAATTTATGTATTGTGGTGAA
GTTAATGTTAAGCAAGAGGCATTGCCAGCATTTATTAGCACAGCAGAAGCACTTCAAATT
AAAGGATTAACAGAATCGAACGAAAATGTCGGCACT
>g2505.t6 Gene=g2505 Length=125
MADEEQFSLCWNNFNTNLSAGFHESLCRGDLVDVTLAAEGQLVKAHRLVLSVCSPYFRKM
FTQMPANQHAFVFLKDVSSTALKDLIQFMYCGEVNVKQEALPAFISTAEALQIKGLTESN
ENVGT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g2505.t6 | CDD | cd18315 | BTB_POZ_BAB-like | 31 | 115 | 0.000 |
| 6 | g2505.t6 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 4 | 121 | 0.000 |
| 2 | g2505.t6 | PANTHER | PTHR23110:SF97 | MODIFIER OF MDG4 | 1 | 120 | 0.000 |
| 3 | g2505.t6 | PANTHER | PTHR23110 | BTB DOMAIN TRANSCRIPTION FACTOR | 1 | 120 | 0.000 |
| 1 | g2505.t6 | Pfam | PF00651 | BTB/POZ domain | 22 | 121 | 0.000 |
| 7 | g2505.t6 | ProSiteProfiles | PS50097 | BTB domain profile. | 32 | 98 | 21.347 |
| 5 | g2505.t6 | SMART | SM00225 | BTB_4 | 32 | 123 | 0.000 |
| 4 | g2505.t6 | SUPERFAMILY | SSF54695 | POZ domain | 5 | 119 | 0.000 |
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:0005515 | protein binding | MF |
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.
