Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative BRCA1-associated protein.

Parent gene

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.t7 TSS g12076.t7 20813989 20813989
chr_1 g12076 g12076.t7 isoform g12076.t7 20814070 20815926
chr_1 g12076 g12076.t7 exon g12076.t7.exon1 20814070 20814519
chr_1 g12076 g12076.t7 exon g12076.t7.exon2 20814596 20814855
chr_1 g12076 g12076.t7 exon g12076.t7.exon3 20814922 20815926
chr_1 g12076 g12076.t7 cds g12076.t7.CDS1 20815402 20815926
chr_1 g12076 g12076.t7 TTS g12076.t7 20816005 20816005

Sequences

>g12076.t7 Gene=g12076 Length=1715
ATGTCTATATTAGTTACACTGTGCTTACTAAAAATTGAAATAGTTGATGAAATGGAAAAT
GAAGGTGGTGAGTGAAAATCTTTCTTAAAATTAGTGAAAACATGAATATTCTTTGTTGTC
TGTAATAAATATTGTGTAATTTATTTTATTATAATTAGAATCAGCAGCAGCATCTTCGGT
TGATCAACGAGTCATAAAAGAACGTCGAGGACAGCGACAACCAAAAACTATTCAAATAGA
AACTTATGCAAATGTACTTGCAGGCGAACATCAACAAATTAAAGGTGTTTTACCAAAAAA
TTCAAATACAAACTCAAGGGAGCAAACGCCACTCACAGAAAATAATTCAGAAACGAGCTC
AGTCCCAGATACACCAAATGAAGTGAAATTTTTCTCTGGTAATCCATTTGTTGAACAAAC
TAATGGAATTTTGCATCTATACAAAAAGAAATTCAATACAAGATGGTCTCTCTCAAACAC
TTTGTTTGCTTGCTGTTCCAGCAACATTGAGTTGCCATGATATTCTGAATTTTATTGCAC
CTTGTCATTCAGTCATCAATCATGTTCGCATTATTCGAGATTCCAATCCAAATCAATATA
TGGTCATTTTAGATTTTCGTACTGTCGATGATGCTTACGAGTTTTATAAAACTTTCAATG
GTGTTCCATACAATAGTCTTGAACCAGAACAACTTTGTCATACACTTTGGGTAAGTGCTA
TTGCATGGGATAACATGGATTCAACTCCACCAAATCACACGGAATTGCCGGTTTGTCCTG
TTTGCCTCGATCGTATGGACGAAAGTGTTGATGGTGTGCTGACAATTTTATGTAATCACA
CATTTCACTGTGGATGTTTAGTAAAATGGGGAGATAGTACTTGCCCTATTTGTCGTTATG
TACAGACACCAGAACTCACACAAAGTTCAGTATGCATGGAATGTGAAGGAACTGAAGCAC
TATAGATTTGTTTAATTTGTGGACATGTAGGATGTGGTCGCTATCAAGGTGGACATGCCG
CAATACATTACAGAAATACAAACCATACATATGCTCTACAATTGGGAACTAATCGAGTAT
GGGATTATGCTGGCGATAATTTTGTTCATAGACTTTTGCAAAACAAATCAGATGGAAAAC
TTGTTGCAACTCAATCACCTAGTGGAGAAGGAGAGGAGAAAATTGATTCAATGCAATTAG
AATTTACATATCTCTTAACTTCTCAACTTGATACTCAACGACAACATTATGAAGAGAGAC
TTGCAAGAATTGAAGCTGCTATGGTTAATGATAAGCAAGGGATTCTCAAAGAGACAGAAG
CTATTAAAGAGAAAAATTCTGAATTTGAACAAAAATTAAATGCTGTAGTCAAAGAAAAAC
AGGCAATTGAGAAGAAGTTGAATGCAATGAGTAGTCGTCTAGCGATAGTACTAAAAGATC
TCTCTGAAGAGAAACAATTTTCAAAAACTCTTCAATTAAATCACAATTCTTGGCAGACAA
AGTACTCAAATTTGGAAAAACTTTATAAAGAAAAAGAGCAAGAAGTTATTGATTTAAAGG
AACAAGTGAGAGATTTAATGTTTTATATGGAAGCTCAAAATACAATTTCCAAATCTGAAC
TGAAAGATGAAATTGCAGAAGGTTCTGTAACAATAGGTGAAACAAGTGGAAATGGTAAAA
ACAAAAATCGACGCAAGAAGAAATCAAGCACATAA

>g12076.t7 Gene=g12076 Length=174
MQLEFTYLLTSQLDTQRQHYEERLARIEAAMVNDKQGILKETEAIKEKNSEFEQKLNAVV
KEKQAIEKKLNAMSSRLAIVLKDLSEEKQFSKTLQLNHNSWQTKYSNLEKLYKEKEQEVI
DLKEQVRDLMFYMEAQNTISKSELKDEIAEGSVTIGETSGNGKNKNRRKKKSST

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g12076.t7 Coils Coil Coil 10 30 -
6 g12076.t7 Coils Coil Coil 49 76 -
5 g12076.t7 Coils Coil Coil 98 125 -
3 g12076.t7 MobiDBLite mobidb-lite consensus disorder prediction 152 174 -
1 g12076.t7 PANTHER PTHR24007 BRCA1-ASSOCIATED PROTEIN 2 171 9.7E-27
2 g12076.t7 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. There were no conditions that were differentially expressed