General information for g12076.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative BRCA1-associated protein.
Parent gene
- The parent gene g12076 is located on chr_1: 20814940..20815926 (+ 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 | g12076 | g12076.t9 | TSS | g12076.t9 | 20813989 | 20813989 |
| chr_1 | g12076 | g12076.t9 | isoform | g12076.t9 | 20814940 | 20815926 |
| chr_1 | g12076 | g12076.t9 | exon | g12076.t9.exon1 | 20814940 | 20815926 |
| chr_1 | g12076 | g12076.t9 | cds | g12076.t9.CDS1 | 20815402 | 20815926 |
| chr_1 | g12076 | g12076.t9 | TTS | g12076.t9 | 20816005 | 20816005 |
Sequences
>g12076.t9 Gene=g12076 Length=987
GATAACATGGATTCAACTCCACCAAATCACACGGAATTGCCGGTTTGTCCTGTTTGCCTC
GATCGTATGGACGAAAGTGTTGATGGTGTGCTGACAATTTTATGTAATCACACATTTCAC
TGTGGATGTTTAGTAAAATGGGGAGATAGTACTTGCCCTATTTGTCGTTATGTACAGACA
CCAGAACTCACACAAAGTTCAGTATGCATGGAATGTGAAGGAACTGAAGCACTATAGATT
TGTTTAATTTGTGGACATGTAGGATGTGGTCGCTATCAAGGTGGACATGCCGCAATACAT
TACAGAAATACAAACCATACATATGCTCTACAATTGGGAACTAATCGAGTATGGGATTAT
GCTGGCGATAATTTTGTTCATAGACTTTTGCAAAACAAATCAGATGGAAAACTTGTTGCA
ACTCAATCACCTAGTGGAGAAGGAGAGGAGAAAATTGATTCAATGCAATTAGAATTTACA
TATCTCTTAACTTCTCAACTTGATACTCAACGACAACATTATGAAGAGAGACTTGCAAGA
ATTGAAGCTGCTATGGTTAATGATAAGCAAGGGATTCTCAAAGAGACAGAAGCTATTAAA
GAGAAAAATTCTGAATTTGAACAAAAATTAAATGCTGTAGTCAAAGAAAAACAGGCAATT
GAGAAGAAGTTGAATGCAATGAGTAGTCGTCTAGCGATAGTACTAAAAGATCTCTCTGAA
GAGAAACAATTTTCAAAAACTCTTCAATTAAATCACAATTCTTGGCAGACAAAGTACTCA
AATTTGGAAAAACTTTATAAAGAAAAAGAGCAAGAAGTTATTGATTTAAAGGAACAAGTG
AGAGATTTAATGTTTTATATGGAAGCTCAAAATACAATTTCCAAATCTGAACTGAAAGAT
GAAATTGCAGAAGGTTCTGTAACAATAGGTGAAACAAGTGGAAATGGTAAAAACAAAAAT
CGACGCAAGAAGAAATCAAGCACATAA
>g12076.t9 Gene=g12076 Length=174
MQLEFTYLLTSQLDTQRQHYEERLARIEAAMVNDKQGILKETEAIKEKNSEFEQKLNAVV
KEKQAIEKKLNAMSSRLAIVLKDLSEEKQFSKTLQLNHNSWQTKYSNLEKLYKEKEQEVI
DLKEQVRDLMFYMEAQNTISKSELKDEIAEGSVTIGETSGNGKNKNRRKKKSST
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12076.t9 | Coils | Coil | Coil | 10 | 30 | - |
| 6 | g12076.t9 | Coils | Coil | Coil | 49 | 76 | - |
| 5 | g12076.t9 | Coils | Coil | Coil | 98 | 125 | - |
| 3 | g12076.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 152 | 174 | - |
| 1 | g12076.t9 | PANTHER | PTHR24007 | BRCA1-ASSOCIATED PROTEIN | 2 | 171 | 9.7E-27 |
| 2 | g12076.t9 | PANTHER | PTHR24007:SF7 | BRCA1-ASSOCIATED PROTEIN | 2 | 171 | 9.7E-27 |
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.
