GgaINT0045271 @ galGal3
Intron Retention
Description
NA
Coordinates
chr7:6868257-6869887:+
Coord C1 exon
chr7:6868257-6868572
Coord A exon
chr7:6868573-6869578
Coord C2 exon
chr7:6869579-6869887
Length
1006 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
AGCGTCTTTGGTTGCTCCAGGAC
3' ss Score
7.14
Exon sequences
Seq C1 exon
GCGGAGGTGAGGCTGGCAAATGGCAATGGCGGTGTGCACTGTGCTGGGAGAGTGGAGGTGAAATACGACAATGAGTGGGGGACCGTGTGTGACGACTCATGGGACATGAACGACGCTGAAGTGGTTTGCAAGCAGCTGAACTGCGGGTCTGCTATAGAAGCTCCTCACTATGGACACTTTGGACCAGGATCTGGCCCCATTTGGATGGATGATGTTAACTGTAGTGGCTCTGAGTCTGCACTGTCTGACTGCACACATGCAGGATGGAATAAACATAACTGTTATCACAGTGAGGATGCTGGAGTTACATGTTCAG
Seq A exon
GTAAGGGACTAGCATATTCTCCACTTCTGTGGCCAGTTCAGGTGAATCAATGAGCAGATGCCAGAGAACACCTGGTGTACCACTTGCGGTGATGAGCTGGGGCTGTCAATTGCTGGTCCCTGGGAAAGGCCCATTGGGAGTCCTCATGTGCCAGCATCCTGCCTGGCCCTAAGGTGGCTCAACCAACCCTTGGTTGGTGCCTGGGGCAAGGAGATGAATCTCCTGCATCCACGTCATAATGTCTATTGGTTCCCATCTGTCTCCTCGTGATCACCCAGGACAATGAAAGTGATTAAAGTGGCCACAAACGTCCCTGAGAAGGGTATGAGGTGGCTGGGAACTTTTGGATTGTGCTCCAACAGGCACAAACCTCTTGGCCAAGACGAAGGAGCTGCTTGGAGGTGAGCTCTCAGACCACTCCTACCCTCTTCCTGGCCATTGGCTAGGGACACATGCAACCAGCAGTGCATTCTGGCCCTGGATGAGGAACCCTCCCCAGGCAGGCAATGGAGCGGGGGCTGGTGCAGACAATGACTGCAGGAACAACCAAACCATGGTTTGGACACTTGTGGTGTCCCATCCAATAGCAGTGCCCGAACAGTCCAAGGCATCTGGGAATGGGGAACTTTTCTGGCAGCTCCAAGTTGTTCCTTTGCCTTGCCAGAGACTGGCAGAGCAGAGCAGGCTGAAATGTCTGCAGTTTCCAGGCCCATTACCCACATGCTGTGGTCACTGCAGTGCTGGGGGATGGGATCAGGCAGAGCAGGGGCGCCAGAGCAGGAGAAATTTGCCTGAGCAGTGCCTGTGGCTTTGGTGAGAAAGAAGTCCACAGGTGCTGGGTTGGTTTCTGAGGAGCAGCAGGGACTCCCTGATGTGTTTGTGCCATCAGCACCCACCAAAAGGTGCTGGGATGGCTGTGGGGCTCTGCATGTGGCAGCCTTGGAGATGAGGTGGGACATAAGAATGCAAGTGCCAGAGAGCTCACAAGCGTCTTTGGTTGCTCCAG
Seq C2 exon
GACCTATTCGGCTTGTTGGAGGCGACAGTGACTGCTCAGGTCATGTGGAAATCCATGATGGAAAACAGTGGAGATCTGTCTGTGACTCACACTTTGGTCCCAAAGCTGCCGATGTTGTCTGCAGGGATTTGCTGTGTGGCAAAGCCCTGCTGTTACCCAGAGCAACTCCTTTGGATGAAGAAGTCAGTCCCATCTGTGACAGAGATCTGCAGTATGTGATGAATGCATCTGTCCTCATCTCCTGCCTCAAGGAATCCTCCATCAACCATCCCTGCGCCCACGCAAATGGCACTCACATCACCTGCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002213:ENSGALT00000003467:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
PF0053013=SRCR=WD(100=94.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTAGTGGCTCTGAGTCTGCA
R:
CCTTGAGGCAGGAGATGAGGA
Band lengths:
349-1355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]