GgaINT0123652 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16:24551-25676:+
Coord C1 exon
chr16:24551-24838
Coord A exon
chr16:24839-25374
Coord C2 exon
chr16:25375-25676
Length
536 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGCTCCCATTAAACATTCAGCAA
3' ss Score
2.74
Exon sequences
Seq C1 exon
CCCCATCAGAGGAGGAACCACCACAGCGGCCCCGCCTGGGCATGCTCACAGTCTCCCACGTGACTCCTAGCTCCATCCAGCTGGAATGGAGTGTCCTTGAGGGCACCTTTGACTCCTTCACGGTGCAGTACAGGGATGCACAAGGCCAGCCACAGGCACTTGCTGTCGATGGTGGGTCACGCACAGTGACTGTGCCCGGGCTGTCACCGTCCCGCCACTACAAGTTCAACCTGTATGGGGTGTGGGGGCGGAAGCGCATTGGTTTCATCTCCACTGATGCTGTCACAG
Seq A exon
GTGAGGCTACCGTGAGCGCCATCCATGCCCCCTTTAGATCACTCCATGGGAATGGTGACCTTGGGAGGCATGGGAACAAATCTTGGCCCTTGATTTGGTGCTGCATATGTCTGTGTGCAGGGTCTGAGGGCTGGAGACCTGAAAGGATGGGAAGCTGGATGAGGGTGTGAGTGGCTCATGGGATGGTTGTATGTAGATGGATAGTTGTGCAGACAGTGGGGACTGAATGGATGGACAAGCGGATTTATGGATGAGTGGAGAAAATGGGTGGGTGGACGGATGGACAAAATACGCAAAACTGTGGATGCATGACCGTCTGGATTAGCTGGCAAAAAAAGATAACTAAGTAGATCAGAATGGATGGGAAAAAATGGAGAAATGGAAAGAAAGTTATATAGGTTTCTGAGCTGAGTGACTAACGGGTCACAAGATGGGTGGATGCACATACAGGTAGATAAACAATTGCACAAATGAGTGAATAGGTGAAAGGATGCCTGTCTCATACATGAATTCTATTGCTCCCATTAAACATTCAG
Seq C2 exon
CAAAACCAAAGGAAGAACTGCCATCCCAACCACGCCTGGGTGAGCTGACGGCCTCCCACGTCAGCCCCGACTCCGTCCAGCTGGAATGGAGCATCCCCGAGGGCTCCTTTGACTCCTTCACGGTGCAGTACAAGGATGCACAAGGCCAGCCACAGGTGGTGCCCGTGGACGGTGGGTTGCGCACAGTGACCGTGCCCGGGCTGTCGCCGTCCCGCCGCTACAAGTTCAACCTGTATGGGGTGTGGGGGCGGAAGCGTCTGGGCCCCATGTCCACTGATGCTGTCACAGGTGAGCATGCTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000182:ENSGALT00000000238:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.351 A=NA C2=0.465
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=81.4)
A:
NA
C2:
PF0004116=fn3=WD(100=81.2)
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:
CGTGACTCCTAGCTCCATCCA
R:
CGTGAAGGAGTCAAAGGAGCC
Band lengths:
352-888
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]