GgaINT0117854 @ galGal4
Intron Retention
Description
NA
Coordinates
chr1:75623306-75624121:+
Coord C1 exon
chr1:75623306-75623508
Coord A exon
chr1:75623509-75623905
Coord C2 exon
chr1:75623906-75624121
Length
397 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
GACTTTCTCTTTACCTTCAGGAT
3' ss Score
11.41
Exon sequences
Seq C1 exon
TTTTTTTTCTCTATGCATCAGCAGAGCATCTGACATCAGATTCCAGTAGTGAAGAATCTTCTTCTATGATTGAGATAGTAGCCTATATCCTTCTGGCTCATGTTTCCAAACCAGACTTTGCTGTCAATGACAGTGCAGTCAGCAAGCTTGTGCACTGGCTCAGTAAACAAAGAAATGCTCTCGGGGGATTTGCTTCCACACAG
Seq A exon
GTAACAATCGGGGGGAAGTTATGGGGGAAGAAGAGATATACTGTACATAGAGTGATATGTGTGTCATTTGTGTGCATGTCATTCCAGATCTATCCTTTGCAGAGAGGCATACATGAGCCCTGCTTGGGAAGGGGAATGCCATGGGAAAGTTTTTTTGTTTTTTGTGGGTTTCTTTTTTTTTGGTGGTGTAATTGGGGTCACCCAGGACTCAGAAGCCATGCTTGCCAACATGCAGAATACATCCAGAAGCCTGTGAACTTACTGGCATGTACCCTAGTTGTATCAGAGCATAAGTCAGGGCCATTAGATGTGTATTTTTCCCTGTCATGCCTGATTTAGAGTGACGGATCTTGTACTGCTTTACTGCATAGGAAAGTGACTTTCTCTTTACCTTCAG
Seq C2 exon
GATACAGTCGTTAGCCTGCAGGCCCTGGCTCAGTATGCAGCCCTGATTCCTCATGAGGTCAGAGATGTGAAGGTGACAGTGAAAGGCAAAGAGGCTTCTCCGCTAGAGTTCCATGTGCACAAAAATAATAAGCTAGTCTTGCATCAAGCATCTCTCCTTGAAGTCCCAGGGATGTACACAGTAGAGGCAACTGGCAGTGGCTGTGTCTACATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014252:ENSGALT00000023051:42
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(28.0=100)
A:
NA
C2:
PF076789=A2M_comp=PD(5.4=18.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
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:
AGTAGCCTATATCCTTCTGGCTCA
R:
TGTATGTAGACACAGCCACTGC
Band lengths:
342-739
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]