GgaINT0005310 @ galGal3
Intron Retention
Gene
ENSGALG00000014179 | SBK1
Description
NA
Coordinates
chrUn_random:33309002-33310711:-
Coord C1 exon
chrUn_random:33310509-33310711
Coord A exon
chrUn_random:33309791-33310508
Coord C2 exon
chrUn_random:33309002-33309790
Length
718 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
ACCGCGTCCCACGGCCGCAGGTG
3' ss Score
8.88
Exon sequences
Seq C1 exon
GCACCAAGATGGCCCTGAAGTTCGTCAACAAGAGCAAGACGAAGCTGAAGAACTTCCTGCGGGAGTTCAGCATCACCAACACGCTCTCCTCCAGCCCCTTCATCATCAAGGTCTTCGACGTGGTCTTCGAGACAGAGGACTGCTACGTCTTTGCTCAGGAGTATGCCCCAGGAGGGGACCTCTTCGACATCATCCCCCCACAG
Seq A exon
GTGAGAGCTGTTCTGGGTGCTGGGGTGGAGACATGAGGGCTTGGTGTCCCCGGACAAAGCCACTGTGCCCGGGCTTGCACATTGCTGGTGGCACAAGAAGGGGCCCTGGTGTTTGCACAGCCCCACATGCGGGGATCACACATCTGTACACGGGCAGAATGCCGACACTTAGATAGTGCAGCACCTAAAAGCAGGCTTGGGACCCATTGCTCATCCCCTGGGTGGCCTGGGACCCATAACCTTTCCCATTGCTGGCATGAGACCCACCACCCATCCCTTGGGTGTTCTGAGACCCATAACTGATGGCTTTCCCATCCCCTGGATGGCACGCAACCTGTCTTCTGGGTGTTCTGGGACCCATAAGTGATGGCTTGAGACCCATCAAGAAACCATAGTGTGGTCCAAGACACGTAACTTGTAGCCTGGGACCCATAACCCTTCCCATGGGTGGTCTGAGACGTGTCACACATCCTCTAAGTGACCTGGGTCCCATAAGTGGTGGCCTGGGACACATCATGTGTCCTCGAGAAGGCATGGGACCCATCCGCTGGCCCTGGTGGCTCAGTCCTGCTGCAGCATATCTTTTCTTCCCCTTAAGTAGAAGGGACAGGAAGGAGGAGGGAGGGCAGTGAGTGGGAAAGGTGCAAAGAGAGAGACGGGGGGCACACGGGTGGGCCGTCAAGGGGCGGCGTGGAGTGACCGCGTCCCACGGCCGCAG
Seq C2 exon
GTGGGGCTCCCCGAGGACATGGTGAAGCGCTGCGTGCAGCAGCTGGGCCTGGCGCTGGACTACATGCACAGCAAGAGCCTGGTGCACCGGGACATCAAACCGGAGAACGTGCTGCTCTTCGACCGCGACTGCCGCCGCGTCAAACTGGCCGACTTCGGCATGACCCGCAAGGTGGGCTGCCGGGTGAAGCGCATCAGCGGCACCATCCCCTACACGGCGCCCGAGGTGTGCCAGGCCGGCCGCGCAGAGGGCTTCGCCGTGGACACCAGCATCGACGTCTGGGCCTTCGGGGTGCTCATCTTCTGCGTCCTCACCGGGAACTTCCCCTGGGAGGCGGCGGCCGCCTCCGACACCTTCTTCGAGGAGTTCGTGCGGTGGCAGAAGGGCCGCCTGGCGGGGCTGCCCTCGCAGTGGCGGCGCTTCACGGACAGCGCGCTGCGCATGTTCCAGCGCCTGCTGGCCCTCGACCCCGAGAAGCGCTGCCCCGTCAAGGAGGTCTTCTACTTCATCAAGTACGACCTGATGGCCGAGGTGCGCCGCCGGCCCTCCTACCGCTCCCGCAAGCACGCCGGGGACAAGCTGCCCGCCGGGCCGCACCGCCACGAGCCCACCGCCTCCTGCACGCCCACCCCGCTCAAGAGGACCATCCTGACCGACGGCCCCGGCACGCGGCTCAACGGCCCCGAGCCCAGCGCGGCCTCGTCCGGCCCGGCCGGCAGGACAGACGGACGGCAGGACAAGGGCAAGGGGCAGATGGTGCTGGCCACAGCGATAGAGATCTGTGTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014179:ENSGALT00000022935:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.252
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(25.8=100)
A:
NA
C2:
PF0006920=Pkinase=PD(64.6=63.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGGAGTATGCCCCAGGAG
R:
CAGAAGATGAGCACCCCGAAG
Band lengths:
355-1073
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]