GgaINT0126214 @ galGal3
Intron Retention
Gene
ENSGALG00000001225 | RABGAP1
Description
NA
Coordinates
chr17:9577723-9579462:+
Coord C1 exon
chr17:9577723-9577866
Coord A exon
chr17:9577867-9579420
Coord C2 exon
chr17:9579421-9579462
Length
1554 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
TTTGTCATTTTTCTCTCTAGGGA
3' ss Score
12.03
Exon sequences
Seq C1 exon
GAATACATTCCTGATCTGTATAACCACTTCCTGGACATCAGCCTTGAAGCACACATGTATGCTTCCCAGTGGTTCCTTACATTGTTCACGGCAAAATTCCCTCTCTACATGGTCTTCCATATTATTGACTTACTCTTATGTGAG
Seq A exon
GTATGTGTTGCAACTGAAGACTTGTACTGCTAGTAACTTTTGACTGTTTCTCACCATCTTGATTCACATCCATGTTACCAGCTGTTCTTCCAGAGCTAGGCACGTGATACTTTTATGTAGAAGTGTTACATTTTCACAGTGGAAAAGAGTTCTCAGCATTTTAAAGAAATGAATTAGGAACGTATATATATATATTATGATATTTCAGAGTACTGTTTAATGTGGATGTAATTCCATACAGTGCTCACAGATGTAAGTTAATTTAGAAATATGGATGAAAGAGTCCAATTTTCTTATGTTATTTAATTGTATTATACACTGTGATAACGTTTGTGGTGTTCTTTTTAGAATATGGTTGCAAAAAGGCCATCCCATGTAGAGCAGCTCAGCTAATTTCTGTGCTGGTGATCTCACAAGCCTGGGGCTCTTTTTCCAGGAGACTTGAAGTCTCTTTATACTTCCCAGCATATATTTAGAAAGCAAAACTATTTACTTCGAGGTTTGGACAAATGCATATTTAAAACAGCATATTTGGTAGTATGTTGGTACACAGTATAATTTGATTTGGAGCTCATTAACATGTATTAACAATTCATGTTTTGTACCAAACATTCGTGAGTTATCTCATGATTTACTCTTACTGGCTGATTAACATTATTTTGCATTCTCCACCAGATCTGTAATTGCTTATGTGGAGTGGTACAGTTTGTCTAAATTTTGGACATTGAAGGGTTTCAGCATTCATAAATCTCCTGGTCAGTTTTACCCTTTCTCTGTTATCATCTGCTGCTTATTTTGTCCATGTGCCAATGTAATTGAAGGCAGCAGATGGTATCTAGAAAATCAGATATACTTGTTTAGAAACACATTTTAAATTCACAAATAGTAAATGTGCTCCTAGTGAACACTGATTTTTTTTGTTTTAAAATATGAGTGGAAAAAATTCAATGGGAAAAGAAAGACAATGTTGAAATCCAATGAGCAGTGTGTTGTGATTAGGGAAGGCACCCCTTAAGAAGTTGTATGCTACTACTGACTATAGGGACTGTTATAATTAACCAGGCAGCTTAAGTAAAACACCTCTAACAAACAGTGGCAAAGTGGGTGATGTGAGACTCTGTCCTGGAGTGAGTTACCTTCTTTTTTATTGCAAGAATTATTCCAGCTTTTGAATACCAGAAATTAATGTGTTCATGTGTATTTTGCTGCATTTGAGTTCAGTGTTCTCAGAAGTTGCTGTATGAAAATTACATCATCTTGAGCTGACCAACCAGTCCTTAAAAAATGAAGTGCAGCACCTTCATCATTTTGGAGTTCAGAACTATTAAGATGGTAAAACCTGTGCTGAAATATTGGTTTGCTATCAGTAATGGCAGTTCAGTGAAGATACCTTCCTAACTGCTTGTAAAGTCATTTAATGTAGTGCCTGGTTGCACTTGTATCCTTGTTCTCATCTTTGCAGAAACTACACTAACAACAACATTGAGCAAGTACATTAAAAAGTAGGATAGCAAATACCAAGAAATTAACTTATTTTGTCATTTTTCTCTCTAG
Seq C2 exon
GGAATAAGTGTTATCTTTAACGTTGCACTGGGATTATTAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001225:ENSGALT00000001858:16
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=0.000
Domain overlap (PFAM):
C1:
PF0056613=RabGAP-TBC=FE(23.0=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(6.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATTCCTGATCTGTATAACCACT
R:
TTTTAATAATCCCAGTGCAACGT
Band lengths:
182-1736
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]