GgaINT0105039 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79468293-79469406:-
Coord C1 exon
chr1:79469325-79469406
Coord A exon
chr1:79468450-79469324
Coord C2 exon
chr1:79468293-79468449
Length
875 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAG
5' ss Score
5.39
3' ss Seq
TGATTCTTGTTCACCTGTAGGCT
3' ss Score
9.57
Exon sequences
Seq C1 exon
GGTACCAGAAACAGCTTTCATACAAACACCAGGATGGGTCCTACAGCTCCTTTGGGACACGAGACAAGGAAGGAAATGTATG
Seq A exon
GTAAAGGATGACACTTTCTATTTCCCTAGCTCAGAATCTTTAGCCTTTGAAATGTTTTAGGTGATTCTTATTTTTAATGGACTAAATGGACACAGTTCAGTTAATTTGGATCTCCCACTAAGGGAGGTGTGAGTAAAACTGGAGAGGTTACAACAGAATGACAATTAGGTGATCAGGGTCTGGAGCACATAATGTTCAAGGAGAGACTGAAAGAACTAAATTTGTTCAGCCTGTAGAATAGGAGGCTAATGGGGAGCCTAGATATAGCCTTCTACCACGTAGATCAGGGCTGTAGGAGAGACAGTCAAACTCTTGTCAGAGGTGCACAGAGTAAGGAAAATAGTTTTTCTGCACACAAGTTGCGTCAGGGAAAGCAGGATAGAATGAAAACAAATCTTACCTAGAAGAAGGGTGTAGCACTTTAGCAGGTGTCCAGTGAGGGCGTGGAAACCTCTGTTTCTGCAGATTTTTGCCACGTGGCAGGACAAGACACTGAGCAATCTGTCCGAGCTTTGCTGTTGATCCTTAATTTAAGGAGGTGATGGGACTGGAGACTTCTAGAAGTCCCTTCCCACCCAGTTTATTTCATAATTATTTTGGTTAAAGTAGGAAATTACTGCCATCAGTCATCAAGCTGTGTCTATGCTTTACTCCAGCTTTGAAAGGTTTCAGCACAGTAATGGAGAAATCTCAGGTCAGTTTGTAATACCAGAATTTTAATTATTTATTTAAAATGTACAAAAACACTTGTTTCTTTTACCACAGACATTATGGATTTCATTCTATGTCCATTTCTATTCGTATCCAGTTACTGATATACCTTCTCTTAAACTTGTTCATGCTTTACCTGCTTTCTGATTCTTGTTCACCTGTAG
Seq C2 exon
GCTCACTGCCTTTGTATATAAGTCATTTGCACAAGCAAGACGGTACATCTATGTTGATGAAAATGTCCAGTCTCAAACTCTGATCTGGCTGGCAAGAAAGCAGAAGTCAGATGGCTGCTTTGAAAATGCTGAGTCACATTTCAACAATGCTTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:24
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:
PF076789=A2M_comp=FE(10.8=100)
A:
NA
C2:
PF076789=A2M_comp=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTACCAGAAACAGCTTTCATACA
R:
TTCAAAGCATTGTTGAAATGTGACT
Band lengths:
238-1113
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]