GgaINT0105028 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79482727-79483452:-
Coord C1 exon
chr1:79483298-79483452
Coord A exon
chr1:79482877-79483297
Coord C2 exon
chr1:79482727-79482876
Length
421 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAA
5' ss Score
4.51
3' ss Seq
TTGAATTTACTCATTTCCAGCTC
3' ss Score
7.4
Exon sequences
Seq C1 exon
CTTCCACAGCTCCCTGGGGTACTTTTGCCATTACACTGGATGTCACTGAGAAGCTCACCCCCAGTGCCAGATTGTTGCTCTACACGGTCCATCCTGATGGGGAGATAGTGGCTGACAGCTCTTGGATACACAGTGATGTATGCTTCAAGAACAAG
Seq A exon
GTGAAAACTTTTGTTTTCTTACAAAGGGTTATATCTGCTAATTTTTAGTTGTGTTTTGTTGTTGTTGTTGTTTTTGCTGGGTGAAAAGATAGGGAATGACTTCATCACAAACACTGCACTCAGGTTGACGTTTAGGAATGGAAAAGATACAGGCATGCCTGATAACACAAGAATCTATCCCTGGAATTTGTGCATATACTCAATCTCAGATTAAGCTGTCAGTGGAGTGGGGAGAAAATGATTAGGGGATTATAGTGACTATGAATTTTTGCAGAACAGGGATTCAGAAGGACTGTTAAACAACAGAAGCTTTGCCCAATTGAGAATGGTGTTAATACCAGTGAAAGATGAGATTTAGATATGTCTGCCAAGCTAATTTTCCTAATTTCTATTTTATTGTTTTGAATTTACTCATTTCCAG
Seq C2 exon
CTCCAGCTTGAGTTCTCTGAGAAGCAGGCTTATCCAGGCTCTAAAATCAACATCCATCTTGAAGCTGCTGCCAACTCCTATTGTGCCTTGCGAGCTGTAGATCAGAGTGTCTTCCTTCTTCAGCCTGAGCGAGAGTTATCTGCTGAGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:13
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:
PF077039=A2M_N_2=FE(33.8=100)
A:
NA
C2:
PF077039=A2M_N_2=PD(25.8=78.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCACAGCTCCCTGGG
R:
GCTCTCAGCAGATAACTCTCGC
Band lengths:
305-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]