GgaINT0000625 @ galGal3
Intron Retention
Description
NA
Coordinates
chrE64_random:46288-48172:+
Coord C1 exon
chrE64_random:46288-46602
Coord A exon
chrE64_random:46603-47842
Coord C2 exon
chrE64_random:47843-48172
Length
1240 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
AGTTGTTTCTCTGCTTGCAGGCT
3' ss Score
8.44
Exon sequences
Seq C1 exon
AGGGTGACCAGGTCCGGCTGGTGAATTACAGGAGCCGCTGTGCTGGCAGGGTCGAGATCTTACACAACAAGCGTTGGGGAACTGTGTGTGACAAGAACTGGGATTTGCTGGATGCCAATGTAGTGTGCAGGCAGCTGGGCTGTGGGAGAGCACTGTCAGCCACTGGACAGGCTCAGTTTGGCCAAGGGTCAGGAATTGTGTGGCTGGATGGGATGAATTGCACAGGGTTTGAGCACTCACTGTCTTCCTGCTTGGCCAAACCATGGGGAATTACTACTTGTGACCACTGGGCAGATGCTGGCGTGGTGTGCTCAG
Seq A exon
GTGAGTGCTGATCCTCCTGCATTTCACTTCTGAAGCAAGTCAGAGGGCTTGGTGGAAGGTGCAGGGACAGCTGGTCCATGCCTCATGCAAAGCTGAGCTGGGACCTGGCTTCAGCATCAGTAGTCAGTGTGGTCTCCCTAAACTTGTCCTGTAGCTGGTGAATGAAGAGGGTCCCTTCCTTCTATGCCAAAAATGTTTGTTTTGGAAGATGGGAGGAATTCCAGCAGGCAGCCTTCCCCATGAACCCTTGAGGCTGACCATGTCCTACAACAGGAAGAATAACACTGAGAGGGAAAGTCTAGTGCAAATAACCTTCCCAGTGAGCTTTTCATGGTGGGAGTGGGGCTGACAACTTGCACAGTGCAAGCTGTGGGAGCACTATTGCGTTGCAGAGAGAAGCCCTCGTGTTCTCCCCTCCTCCTCACCTTTTAGTGACTGGAAGAGGGACCAGAAACTTAAGTGCAAGCAGATAAGCATGGAACAATTATATAGAAGGGATTTCTGGAAGGAAATTTCCAGCATTTATAACACTCATAAATTTTTGCAGACTCGATCATCCCAGAGCCTGCTCATCTCCGACTGGTGAACGGCTCACACCGCTGTGCTGGCCGAGTTGAGGTGTTTCACAAGGAGATGTGGGGAGCTGTGTGCGACCATGGCTGGGATAAAATGGATGCGGAGGTTGTGTGCCGGCAGCTGGGCTGTGGGACAGCACTGTCGGCCTCAGGTGAAGCACACTTGGATGCTGCATCTCTTCGTGTGTGGTTGGACAATGTGAGCTGCGAGGGAACAGAACTCTCTCTTACAAAATGCAGAGCGAGCCCATGGGGAAAGAGCAGCTGCAGCCATGGAAAGCATGCTAGTGTTGTGTGCTCAGGTGGGTTTCAGTGCATTAAACTGGGTTGGGATACACTAGCTGCTCTGATATGGTCAGGTCCTCTTCCACCATCCCACTGGATGGAAGATGGCTACTGTTGGAAGTAGATAATCTTCAAGGTCCCTTTCAATTCAAGCCATTCTCTGATTCTCTGATTCTGTGATTCTATGATTTATCCAACTTTCTGCCAGAGCGAATATTCTCAGATCCTTCAGCGAGTGTCTCCAGAGAGCTGTGGATTCAGAGGCAATGTAACCACAACGCTCTGTGCAGTACTGCCAATGAAAACGAACATTCCTCATCTTTCTCCACAGAAACTGAATGGATGTGCAGTGTTTGACTGAGTTGTTTCTCTGCTTGCAG
Seq C2 exon
GCTCGGTTGTTTCCAGTTTTGCCCCAATTCGACTGGTGGACGGCCCAGGTCTCTGTGCTGGGAGACTGGAAGTGTTTCACAATGAGCAATGGGGAACGGTGTGTGATGACAGCTGGGAGTTCACAGATGCTGCAGTGGTGTGCCGACAGCTGGACTGTGGGGTGGTGATATCAGCTCCACCGAGGGCTTACTTTGGGCAAGGACAGGGACCCATGTGGCTGGATGATGTCAACTGCACGGGGACAGAAGCTGCCCTCTCTGAATGCAAGTTCAAGGGATGGGGTATCCACAACTGTTATCATCATGAAGTTGCCAGTGTGGTGTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009103:ENSGALT00000014816:15
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:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
PF0053013=SRCR=WD(100=88.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
GGCTGGATGGGATGAATTGCA
R:
GCAGTTGACATCATCCAGCCA
Band lengths:
350-1590
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]