BtaINT0121658 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012784 | RACGAP1
Description
Rac GTPase activating protein 1 [Source:HGNC Symbol;Acc:HGNC:9804]
Coordinates
chr5:30046421-30047724:+
Coord C1 exon
chr5:30046421-30046623
Coord A exon
chr5:30046624-30047587
Coord C2 exon
chr5:30047588-30047724
Length
964 bp
Sequences
Splice sites
5' ss Seq
CTGGTGTGT
5' ss Score
4.96
3' ss Seq
TACTCTGCTTTGGTCTGTAGGAA
3' ss Score
8.25
Exon sequences
Seq C1 exon
AATTTATCCAGTTGGCAAAGGACTTTGAAGATTTTCGTAAAAAGTGGCAGAGAACAGACCACGAGTTGGGCAAATACAAGGATCTTTTGATGAAAGCAGAGACTGAGCGTAGTGCTCTGGATGTTAAACTGAAACATGCACGCAATCAGGTGGATGTAGAGATCAAACGGAGACAGCGAGCTGAGGCTGACTGTGAAAAGCTG
Seq A exon
GTGTGTATTGTTTTTCTGCTAGCACTGTGACAGTGGGGGTGCCCTGTTTCTTCTTCATTAAAGAATTAGAAGCAGTTTGTCCATGATTGGAGCTGAAATTGCAACCAGAAATCCTATTTTTCATAGGTTGAAATTTAAATTTTTTAAATGTTTTCTCCTTTAGATCTTAAACATTTACTTAATATACAGATTTCAAATGAGAATTTAAAGAATTAGGGGGAAAGGCAGGGAGATCCTAGCATATTTGATCTATTTCTTATTGTTGATTATAAGTGCTACCTAGAACATCCTCATGTAAGATAGTAACAGCTAGTACTTTGTCATTGATATAAGCAGGACAATTCTTAAGTCTTTATTGCGGCTCTTAATTTAGGATAAAGGGCTCGCTATGTTCAACCAATATGAACACTGGGACGTAGGGCACTGTCATTTTGATGTACCAGAGTGGGTCATGGTACAAAGGAAGCCCTTACTAGGAGGGACTAATCCATCTTGGTATACTGTTAGATGCCTCAGTAAGCTCAAATCGTCTGGTTCCAGTGCATCACAGCTTTGTATCCATTTTAATGCATTTTGCTCCACCATTTAGAAAGGTGGGTGGCTGCTTTGATCTGTAGAAGCCAATAATTGTCCTGATAAGATGACACTAAAGTGTTTTTGCTCTGTGAAATCTATTTTGGGACTCTGATTTTGCAGTCCTCTCTTTTCTTGAATTAGCGGTTTGATCCAAAAGTCTTGTAGCAGAAACCTCACTATTCTAGATAGAGTTCATTTTACCAGTCAGAAATCAGAGACGCAGTCTGGGCTTGATGTGAATTAATATGCTATTGGTGTAGCAGCCTTCCTGAAGGCTCATTTGCATAATGCTGTATTTTAATGTCTTCTGGTTTGCCTGTCCCATAAATTTAAGGTGAAGCTTTCTCCCCTGGTTAGTTAGGATGTTTTACTCTGCTTTGGTCTGTAG
Seq C2 exon
GAAAGACAGATTCAGCTGATTCGAGAGATGCTCATGTGTGACACATCTGGCAGCATTCAACTAAGTGAAGAGCAAAAATCAGCTCTGGCTTTTCTCAACAGAGGCCAACCAGCCAGTGGCAATGCTGGGAACAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012784:ENSBTAT00000016988:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.370
Domain overlap (PFAM):
C1:
PF078886=CALCOCO1=FE(39.9=100),PF140731=Cep57_CLD=FE(52.3=100)
A:
NA
C2:
PF078886=CALCOCO1=FE(26.8=100),PF140731=Cep57_CLD=FE(35.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCAGTTGGCAAAGGACTTT
R:
TTTTGTTCCCAGCATTGCCAC
Band lengths:
334-1298
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]