GgaINT0054963 @ galGal4
Intron Retention
Description
NA
Coordinates
chr5:14153245-14155614:-
Coord C1 exon
chr5:14155414-14155614
Coord A exon
chr5:14154225-14155413
Coord C2 exon
chr5:14153245-14154224
Length
1189 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
ATTTTCTTTCATTCTTTCAGTTA
3' ss Score
10.29
Exon sequences
Seq C1 exon
AATGTGTCTGCATTTATGAAGGACGGACATATAACTATACAGACATGATCTACAATACTACAGATGGCATAGGAGGATGTATTGTTGCAACTTGTGGTCCCAATGGAACACTTCAAAGAGTTGTGTATGACTGTCCAATCTCAACATCACCCACAACACCGTTTCACTTCAGCACTACACCACCTGCCACTGCTTCCACAG
Seq A exon
GTATAATCTTCTAGTCCATAGGAACTTACTCTATGTATTACTGGGTAAAATACAGCCACTAAGTATCACTTTTATTAGTGTTGGGTTTCAGTCAATATTTGGTAATCAAACTAATACAATACAGAAAATAAAATCACTTCCAAAACACCAACATAGAAACAACTGCACACTATTTTAATACAATTATTTTGTTTGTTTTCACAGCAAACTATAAGAAAACTGTATGAGATCAATTATCTCTCATTGTAACTATTTCTATATCTGGAATAATTCTTACTGAATAAAGAGATCACTCATTATTTTTCCTGTTAAATTATAGAGTGATTACATTCTATAGATTTCCTGATAGGGTTCATGATATATGGAATTACAGTAGATTGCTCTGATAATGACATTGAGATATTGAAATTCTCACTTCTATAATTCTTCTCCCATATACTCAAGGTTGGTAATCTCTAATTACTGTGACCACATGTTTAATGAAATACTTGTTCAGTACAAAATTTTGAAGTACAAGTTTTCAAATCGCAGAAACCATCAGCACAACTGGAATTCATTAGCCATTTTCCAGCTATTTCCTATGAATAGTTGGTCTGCAAAATCCTATGGATTGCTCTCCAATCAATAAATAATTTCTTAAAAGCAGAACTAAAGAACAAAGTATCGAGGTGCTAATAATGTTGTGTCAGGGATATCTTAATTTCAAATGAAGAAGCAATGGCAATGCCATGTATTTCATGAGGAATAAATTCATTACAAATGAAAATTGAATATAACAGTGAAATAAATGCCTTTCTTTCTGCCACACTTGATGTTCAGGAGAGACTACTAAATACTGAAACAAGACACGAAACCAAGCAATTGCACTGAATCAAATGTAAAAAAAAAATATAGTTTTTTTTCCTTCAGAACCGATAAAGTGTGTCTGAGTCCTATTTCAGCACTCTCTAAAGAAAAAACAATATTTTCATTGAAGTGATTGTTACAAACATATCAGTGAGTTAAATTGTTAGATAATGGATTTTCTATTCTAGTTGATATTCAATTATAAGCATCCTAAAATAATGTATTAAAAGGCTCACAAAGCAACTAATGATGTTAAAAAAAAATTCAGCCCATTTAACATAATGAAAAAAATATATATGGGAATGTATTCTAAGTTTCAAACTATTTTCTTTCATTCTTTCAG
Seq C2 exon
TTACATCATCACCAACGACATCAGTATGCGTTCATGAAGTCTGTCAGTGGTCAGAATGGTATGATGGAAGCCCACTAATCCCTGGATTTGATGGTGGAGATTTTGAAACATTCAGTGATTTGAGAGCTAAAGGTTATGAAGTCTGTAGAGATCCAAAGGCTGTTCAGTGCAGAGCAGAGAAATTTCCTAACATACCACTGAAGGACCTTGGCCAAAGAGTAGAATGTAATACACAATCTGGGCTTATATGTTACAACAAAGATCAAATTTCAACTATGTGCTACAATTACGAAATCAGAATCTTATGTTGTGTTTTTGTACCATGCTCTTCCACTTCATCCATCACAACACCTTACGAAACTTCAACACTGATCACACATACCCCAGTTCCAGAAAAGACAACCACAGCAACAAGTACCATTATCACAACTTCATCTACAACCACAGAAACAGGAAGTACTACTATCACAAGTACTTCTTCGGAAACAGCAAGTACCTCCCCAGAGGCAATTCGTACAACACCTTGCCAACCAAAGTGCAAATGGTCCAAATGGTATGATGTCCATTTCCCAACTTTGCACAACAAAGGAGATTATGAAACCTACCAGGATATTAGATCTGCTGGAAAAGCAATCTGCAGAAACCCTGAAAAAATACAATGCAGAGCAGAGAAATACCCACATAAATCTATTGAAGAAATAGGACAGGTTGTCCATTGCAATGTAACATATGGACTTATCTGCAGAAATGAAGATCAAAAGGGAGAACTGCATATATGTCTTAATTATCAGGTAAAAGTATTCTGTTGTGATGACTACAGCCACTGCCAAACAAGAGTGACACCAACAGTACCAGAGGAAATTACTACCACCATTACACAATCACCAGCTACTACAACCTCAGAAACTTCAACATTTACAACCAAATTAACATCACCAGTCACCATATCTCCCACAACATCAGCACTCTGTGTAAAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.204
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF133301=Mucin2_WxxW=WD(100=27.2),PF133301=Mucin2_WxxW=WD(100=27.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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:
TGTTGCAACTTGTGGTCCCAA
R:
TCTACTCTTTGGCCAAGGTCCT
Band lengths:
342-1531
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]