GgaINT0031512 @ galGal4
Intron Retention
Gene
ENSGALG00000006531 | TRA2B
Description
transformer-2 protein homolog beta [Source:RefSeq peptide;Acc:NP_990009]
Coordinates
chr9:3905883-3907524:+
Coord C1 exon
chr9:3905883-3906071
Coord A exon
chr9:3906072-3907408
Coord C2 exon
chr9:3907409-3907524
Length
1337 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
TGTATTTTATCTGTGCTTAGGCT
3' ss Score
8.3
Exon sequences
Seq C1 exon
GCAAATCCTGATCCAAATTGTTGTCTTGGTGTGTTTGGGTTGAGCTTGTACACCACAGAACGAGATCTGAGGGAAGTTTTCTCCAAGTATGGTCCAATTGCTGATGTTTCCATTGTGTACGATCAGCAGTCTCGACGTTCAAGGGGATTTGCATTTGTGTACTTTGAAAACGTTGAGGATGCTAAGGAA
Seq A exon
GTAAGTTGCTGTGGCATCAACTGTGTGGGATGTTTGCTGTGTTTTCAGTTGCAGGAATGTATGTTCTATACCAGGATGTAGCCTGGGAAACTCGCAGTTTGACCTTTAAACATGACACAGGAACCTCTTGTGTTAATTGCTTTCACAGTATGAAGTAAATGTAATGCAAGCTAATGCAACAGTATCTTCCCTGCATTCTGGGAGCCTAAAAACTACTTCAGACCTCATGATAAATGTCAGTCTTTGTTCAAAAGAGACCTCCTTTGTACTAGAGGAAATAGTGGAAGGGCATGATTCTGGTCTCCATGTGGATTGAGTTGTTGTATAATTTACAAAAGCAAATATCAACCTACTGTAGTGTGAACTGTGCCAGCAAGAAAAGGAAAATAGAAACACATGTGCTCCCTTTTCTCTTAATTAGGCATGTTCTTTCCAAACTCTACATGTGATCCTCTGTTTAATATTAGTGTTCAGAGTACCCATACTGGTATTACAGTGTTCTCAAATGCTCAGGTGCCCTATGGAAGCATTAACGTGTTCTGCTTGTTTCTAGTGCCTCAATTGTAAAGGGAGGAGAAAATCTTACCTAACAATAAAAGGCCAGGCAGGTGTTACATTGAAGTGATGTCTCTACTAAACAACAAACTACTGAATATATGCTTACAATTGCTACAAAATAACCAGGGAAAGGAGCTTGCAAGTGTGTAATTCTGCACTCAGGCCTGCCCTGGATAGTGCTATGAATAGGCTCATCTCTGCATAAATTCCACTTTGTACCATCTGGAGTGTCTTTTTTTTTTCCCCTTCAATTTGGCATAAGAATCTCACGGTAGGCTGAAGCTTTGAATATAAGCTGTCCTACTTGGCAGGAAAACGAAAAACTATTTCAGATTTTTTGCTTAATAATTGAGTCATAAGCAAATATTACTATATTCAAGGTTAGGGTAGGATTTGAGAATGTCTTTGGGGGGATGGGAGGGAGCTTCTATGCTATGTTTGAAGTTCCATGTTGGAGCAGTTAAGATTCCTCGTAGAGGCATGTTCAATGGCTCTTCTTAATCATATCAGAAATAGTGAAACAATTGGTAAGTTCTGTGAGGAACACGATATCTCATGCAATATAAGTCATGTTTAAGTAGTTACTGAAGCTTATACCCAGCTGGCCTTGGATGCCTTAGAGTTTAGGTTCAGAGATTAAGTGTGAGGCATAAGTGAAATTTAGACCTGCCTTAATTGAGATCTTTTGGGGCTTTTCTTAATATTTCAAGCAGTGGTTAGGAATTTGTGTTGGTAGTAAAGTTCATACCTACAGCTAACTGTATTTTATCTGTGCTTAG
Seq C2 exon
GCTAAGGAACGTGCCAATGGAATGGAGTTGGATGGAAGAAGAATCCGGGTAGACTTTTCCATAACAAAAAGACCTCACACACCTACCCCTGGAATCTACATGGGAAGACCCACTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006531:ENSGALT00000010555:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.641
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(76.1=85.7)
A:
NA
C2:
PF0007617=RRM_1=PD(21.1=38.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGATCCAAATTGTTGTCTTGGT
R:
GGTCTTCCCATGTAGATTCCAGG
Band lengths:
294-1631
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]