BtaINT0121663 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012784 | RACGAP1
Description
Rac GTPase activating protein 1 [Source:HGNC Symbol;Acc:HGNC:9804]
Coordinates
chr5:30051550-30052750:+
Coord C1 exon
chr5:30051550-30051676
Coord A exon
chr5:30051677-30052619
Coord C2 exon
chr5:30052620-30052750
Length
943 bp
Sequences
Splice sites
5' ss Seq
TGGGTTTGT
5' ss Score
0.77
3' ss Seq
TGGAGTTGTCTGTTTTCTAGGTA
3' ss Score
7.9
Exon sequences
Seq C1 exon
GGAAATGAATCCATAGTTGCTAAAACTACAGTGACTGTCCCCAATGATGGCGGGCCCATCGAGGCTGTGTCCACTATTGAGACCGTGCCATACTGGACCCGGAGCCGAAGGAAAACAGGTCCGCTGG
Seq A exon
GTTTGTGGCTGAATTGCCTGTGTGAAAACAACTGGTAAAATCCAGGGAGAACTGGTTTCTTGGAACCCTCATGAGGCAGGGGCTGGATGTTTTAGGTTTACTTTACTGCTACTCACTGAGGGACAGAGCTCTGTTTTTGTCATGCCCTGCTTTGGCTTGCTAGCCTGACCTACACCACTGGTGTGTAACTTGTCTCTCTGGAGACAGTGTTTTGCATAGTTCACTTCTGTGTGTTGTTATAGATTCCTGAGTGTCTAATAGTTATATTGTATATTTGGCTGTGTCGGATCTTTGTTGCGGCACTCAGGATCTTTGCTGTGGGGTGTAGGTTTATTTGGTTGTGGCTCACAGGCTATTGGAGAAGGCAATGGCACCCCACTCCAGTACTCTTGCCTGGAAAATCCCATGGGCGGAGGAGCCTGGTAGGCTGCAGTCCATGGGGTCGCTAAGAGGAGAAAACCACTGACTGATTTCACCTTCACTTTTCACTTTCATGCATTGGAGGAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGGGGAGCCTGGTGGCTGCTGTCTATGGGGTCGCACAGAGTCGGACACGACTGAAGCGACTTAGCAGCAGCAGCAGCACAGGCTATTTAGTTCCCCTGCAGCTAACATGGAAGACATGTTTCCTTTCCATGTCCCCTGGCACTGGAAGGCAGATTCTTAATCTCTGGACCGCCAAGGAAGTCCCTACTAGTTATATTAGAATTGGGGTTAAAATTCAGAAGGGAGAATTACCTGGCGGTCCAGTGGTTAGGACTTCACACTCTCACTGTCAAGGATCCTGGGATCCGTCCCTGGTTGAGGAACTAAGATCTCACAAGCCACAGGGTGCGGCAAAAAAAATTCAGAACGAAATATCTAAGACACAAAGCGTGGAGTTGTCTGTTTTCTAG
Seq C2 exon
GTACTTTACAGCCGTGGAACAGTGACTCCACATTGAGCAGCAGGCAGCCAGAGCCAAAAACCGAAACAGACGGCTCCAGCACTCCGCAAAGCAATGGGGGGATGCGCCTGCACGACTTCGTCTCTAAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012784:ENSBTAT00000016988:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.907 A=NA C2=0.909
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0013017=C1_1=PU(11.5=13.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAATGAATCCATAGTTGCTAAAAC
R:
CATTGCTTTGCGGAGTGCTG
Band lengths:
223-1166
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]