GgaINT1002048 @ galGal4
Intron Retention
Description
NA
Coordinates
JH375515.1:15523-17344:+
Coord C1 exon
JH375515.1:15523-16096
Coord A exon
JH375515.1:16097-17144
Coord C2 exon
JH375515.1:17145-17344
Length
1048 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
ATTTCCTCCCTCTTTTCCAGCCC
3' ss Score
10.63
Exon sequences
Seq C1 exon
GTGGACGGCGAGCGCTTCACGTTGCCGCTGGTGTTGGAGGACCAAAAGCTCCATATTGGGCAAGAGGGGACCAACCTCGTCCTGCATACAACCTCCGGCCTCCGTCTGCTCTACAACGCAGCCACGTATCTGCTGGTCACCATCCCCAGCGCCTACCGGGGCCGCGTGTGTGGTTTGGGGGGCAACTTTAATGGGGATCCTGGTGATGATTTCATCCTCCCCGATGGATCCCCGGCAAAGAGCACGGAGGAATTTGTCACCTCTTGGAAAACACCTCCAGCTGATGGTGGCTGCACCGAAGGCTGCGGTGGGAAGCCGTGTCCCACGTGCGATGCTGCTGCCGTTGCTCCGTATGGCAGCGGGGATAAATGTGGCATCATCCACGACCCAACGGGGCCGTTCGGGTCGTGCCACCATCGGGTGAACCCGGTGCAGTATTTCCAGCATTGCCTCCATGACGTCTGTGCAGCCAATGGGGCACGGGATGCTCTGTGCCACAGCCTGCAGGCCTACGCTGCTGCCTGCCAAGCTGCCGGTGCTGAGATTGGAGGATGGAGGACGGCGGCGTTTTGCC
Seq A exon
GTAAGTGGTCCCAGGTATCCCCAAATCATCCCCTAAATATCCCCAAGAGAAACGCTCAGGTCCCATTTTTCCTCCTGATCCGTATTTCCCTGCAGCAGATATTGGTCCAGATATTTGGACCAAGACATTGCATGAATTGTCAGCATCAAATCATGCCTCGCTTCTTTTTCCTTAAATCATCCCCAAAATCCATGCGATTATCCCAAAATGTTTGCAAGCTCCACCTGAAAGTCCATGAAATGGTGCAGGAGGTCTTTCAGGTAGCCTCAAAAATCCATGAGATGGCCCCAAAATGCTTTCAGACCTTTCCCAAAATCCCCGAGATTACCCAAATATTCCCCCAAATCCACGAAATAGCCCAGAAATGCTTTCAAACCTGCCCCCAAATCCGCAGGGTTGACCAAAATGCTTTCAAATATTCCCCAAAAAACCCAAGAGATTGCCCAGAATGTTTGCAAACCTCCCCTAAAATCCATGGGATCGCACAAATTGCATTCCAGTCTTCCCCCACATCCTTGAGATGGACAGAAATGCTTCCAAATATTCCAGCCAAACCCGTGAGATATCACAGAAATCCTTCCAAATTCCGTCCAAAATCCATCAGATCGCCCAAAACGTTTGCAAATCCTCCCAAAATACACGAGATTGGCCAGAATGCTACCAAATGTTCCCCCCAAAATCCATGATACAGAGCAGAAATGCCCTCAGGCCTCCCCCAGTCCACGAAATCACACAGTTTGCATTCACATATCCCCCCCAAAAATCCATTAGAAAGCCCCCAAATGTTCCAGACCTGCCCTGAAATCCACAAGATCACCCAAAGTACTTTCAAACATCGCCCCGACGTGCACGAAACAGCCCAGAAATGCTCTCAGACCTCCCCCAAATCCATCAGATCACCCCAAACCCTCAACCTACCCCCAAATCGTCTTGCAGACCACCCCCAAATCCACGACGTACCCGAAGCTGTGGCTTTCAAACTGGGGGTCTCCCATCGTCCAAATTGGGCTCGCCGTAAAAAATACCCCATTTCCTCCCTCTTTTCCAG
Seq C2 exon
CCCTCTCCTGCCCACCCCACAGCCACTACGAGCTCTGCACCCGCACCTGTGACTTCACCTGTGCCAGCCTCTCCGTGCCGACCCCGTGCAGCTGGCAGTGCTTCGAGGGGTGTCAGTGTGACGATGGGTTCCTCTTTGATGGCAGCTCCTGTGTGTCCCTGGAGCAGTGCGGCTGCGTCCACCAGGGGAGGTATCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014150:ENSGALT00000022891:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(48.7=39.6),PF087426=C8=WD(100=39.6)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=80.6),PF127142=TILa=PU(16.4=13.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGTGCAGTATTTCCAGCAT
R:
GAGATACCTCCCCTGGTGGAC
Band lengths:
345-1393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]