GgaINT1023212 @ galGal4
Intron Retention
Gene
ENSGALG00000006271 | RACGAP1
Description
Rac GTPase activating protein 1 [Source:HGNC Symbol;Acc:HGNC:9804]
Coordinates
chrLGE22C19W28_E50C23:335216-336729:+
Coord C1 exon
chrLGE22C19W28_E50C23:335216-335562
Coord A exon
chrLGE22C19W28_E50C23:335563-336640
Coord C2 exon
chrLGE22C19W28_E50C23:336641-336729
Length
1078 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TAGTTCTGTTTTCTTGGCAGGAG
3' ss Score
6.72
Exon sequences
Seq C1 exon
ATGGCTGCGCTCGGGGTCGCTGCAGAAGGCGCAGCCCTCGGGTTGGGGGTCCAGTCCCCACCGCCATCCTCCGCCTGCTCCGTTGCTAAGCAGCACAGGCTGGAAGCAGCTGCCAATAGTAACGATGGCGCCTGGCCGGCTTCACCACCCGGCAGCCACGGCAATCAGCGGAGCGGAAAAGCCTTGCCCTTAGCAGACATGGCGCCGGCTTGGCTTCAGACTCACAGCGAGCAGAGCCAATCAGAAACCGGGAGGGTGGAGAGCGCCCTGGGATTGGCTGGCGGCAGGGATTCAAACCGAATCGCGGGGCAGTTGAGGCCGGCTGTTGGAGCGGGAGCTCGGACACC
Seq A exon
GTGAGTGCGCGGGGGAAGCCGGGCCAGGGTGGGGTCCGCGGGGCCCCGTTCTCGGGCCCGGGGGGAGGGGGGATCAGTGGGGTCCTGGGTCGGGGGGGCGTCCGCGGGGCCCCGCTCTCCGGCGGAGGAGGATGATCGGTGGGGTCTTAATCCCGGGCAGAGGAGGAGCCGGGCCTCCTCCCGGTGTGTGCGGCGCGGGGCAGGCCCGGCGCCCGTTACCTCAGGGCTTTCCCGCCCGCTGTGCCCCGAGAGGCGGCTGTGGAGGCTGCGGGCGCGTTGTGGTGCTGCTGGGTGAGGCGCGGGGCTGTGGAAGTGCCCTTCGCGCTGCGGAACGCCCTCAGCGCGCAGCTTCGCCTTTCAGTGCAGAAATCCCCGGGGTGTGTGGGTCTGTAACCGGGCGTTCAGCGCTGCGAGCAAAGCACGGGGCGTCGTGCCCCTCCTGGCACTTCTCCCAGCCACCCCTGCACCTGGGGCTCATTCATTAACCAAGGCTGTCCTGAGTGCCCCATCTCTATTAAAGAATTGCATTCTGTGCTGCTGAGCTCGAGACTTTCCTCTTGGCTGCCCCTGTTTATGCCGTTGTTTTTGCTGTTTGAGGGAATTGTGCTGACTGCCTGCGTTTCCAAGGCCATTTGCAGCAGGAGCTGTAACTTAAAATGCAGCTAAATTTAAAACGGTATTGAAATTCCCCAGAACGCTGCTTCTATTTTTACCTTGTGGAGCTCTGAATGCTTACGGATTTCTGGTGGCCTATATAGCACTAAAGTGGGCCCGAGCTGTGTCCTGCAGCCTTGCAGAAGGAAAATGGTTTGTGATTCCTCCCCTTGCCTCCTCTGTAGTACACTGGAGGCTGTTTGGGAAGCTATGCTGCTCTAATACTGAGCTCTGGAGGGTTGGGTGTCTTTGCTCCTTAAGAATTCAGATGTTTCTCTTCATAAAGCATATATATATATATATTTTTGTACTGCTTTTACATCTTGCCTAAAGAAAAGAGAATTCTGAAACAAATTCTCTCTTCTTTGAGCTGGTAATGCATGTCTCATCTGGAGGTGTTTATTTAGTTCTGTTTTCTTGGCAG
Seq C2 exon
GAGGATGGATACCACAGTGCGGAATCTGTGGAATTTGTGTGACCAACTCATACGCCAGGCTGAAGTTTTAAGTGAAGGAAACGAGTACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006271:ENSGALT00000010135:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.879 A=NA C2=0.065
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=PU(5.8=6.9)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(21.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGCTCCGTTGCTAAGCAG
R:
AAACTTCAGCCTGGCGTATGA
Band lengths:
342-1420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]