GgaINT0003874 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:21791895-21792732:+
Coord C1 exon
chrUn_random:21791895-21792212
Coord A exon
chrUn_random:21792213-21792423
Coord C2 exon
chrUn_random:21792424-21792732
Length
211 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GGTGCCTTTATTCACTTCAGGAT
3' ss Score
7.42
Exon sequences
Seq C1 exon
AAGGGGCAGCAGAGGTGAGGCTGGCGGATGGCAGCGGGCGCTGTGATGGGAGAGTGGAGGTGAAACACCAGGACCAGTGGGGGACCGTGTGTCGTACCGGCTGGGATGAGAAGGATGCAGCGGTGGTTTGTAAGCAGCTGGGCTGTGGGTCAGTAAACAGTGCTGTAACGAATGCAAGATTTGTGCTAGGATCTGGCCGCATTTGGATGGATTATGTCGGCTGTCAAGGCACAGAGTCTGCCCTGTCTGACTGCACACACAGTTTATTAGGTGAACAGTACTGCACACACAGTCAGGATGCTGGAGTTACATGTACAG
Seq A exon
GTGAGGTACTAGCCACTCCTGACCTCTGCGGCCAGATTTGGGGAATCAATAAGTAGATATCGTATGTGGACAGTTGTGCTGTTATTGCTGGTCCCTGGGGAATGGCCATGGGGCCCTGCTTGGTCCCCAGTTGAGGTGGAGGTGAGAAGGGACATGGGCATGGAATTGCCAGAGGGCTCTGCGACCCCACAGGTGCCTTTATTCACTTCAG
Seq C2 exon
GATTTGTCCGTCTGGTTGGAGGGGACAACCGCTGCTCAGGACGAGTGGAAATCAATGACAGGGATGGGTGGAAATCTGTCTGTGACTCACACTTTAGTGCCAAAGCTGCTGATGTGGTCTGCAGAGATCTTCAGTGTGGCAGAGCCCTGCCCGTCACCAGAGCAAGTCCCTCTGCAGAAGGGACCGGTCCCATCTGGGACAGAGAGCTGCAGTGTGTGGGGAATGAATCCACCCTCTCCTCCTGCCCCACAAGGACTCCTCAGGACCAGCCCTGCACCCAGACAAGCACTGCTGCCGTCAGCTGCACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022426:ENSGALT00000036004:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=91.6)
A:
NA
C2:
PF0053013=SRCR=WD(100=94.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACAGTCAGGATGCTGGAGT
R:
TGGTCCTGAGGAGTCCTTGTG
Band lengths:
300-511
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]