GgaINT0126396 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:7582224-7582817:+
Coord C1 exon
chr17:7582224-7582339
Coord A exon
chr17:7582340-7582672
Coord C2 exon
chr17:7582673-7582817
Length
333 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
ATGTGTCTCCCTTACTTTAGGTT
3' ss Score
11.21
Exon sequences
Seq C1 exon
AACATCACAACAAATATCACCTCCTCGCTGATCAGTGTTTGTGAGTGGAGCAAGAAGGTCAACCCCCAGAATGACTCTGATCCCCAGCATGCTGACATCGTCCTGTATGTGACCAG
Seq A exon
GTACTGTAATTCCCCTGTCCTGTGAGAGGATGGAAGTCAGGCCACTGCTGTCTAGTCACCAGTACAGTGACACTGATTTGCACAGAGCCTTTGAAAATGGGTTGATTCTCCTGTTTGGGATTGATTCTCCTGTCCTTAGTGTAGTTTGGCATTCATGGGACTCTACTCCAACCATCCTGCCCCAGGGAGTTCTGTATTCGCAGAAGAAATGCTAGCTAGCAATCAAAGTTAGGTCAGGAAGGTGCAAATAAGTTCTTTTATATATCTAGTCCTGACTTTATTGGTTGCAGTGGTTCTTTGCTTTTTCTTCTGGATGTGTCTCCCTTACTTTAG
Seq C2 exon
GTTTGACCTGCAGTTACCCGATGGGAACAAGGAGCTACGTGGAGTGACTCGGTTAGGTGGGGTCTGCTCCTCCTCCTGGAGCTGTGTTATTACCCAGGACACTGGCTTTGACTTGGGAGTCACCATAGCCCATGAGATTGGGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023559:ENSGALT00000039178:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF135821=Reprolysin_3=PU(42.4=92.3)
A:
NA
C2:
PF135821=Reprolysin_3=FE(56.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCACAACAAATATCACCTCCTCGC
R:
CCAATCTCATGGGCTATGGTGAC
Band lengths:
254-587
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]