GgaINT0001430 @ galGal3
Intron Retention
Gene
ENSGALG00000011945 | SCRN2
Description
NA
Coordinates
chrUn_random:36687519-36688189:-
Coord C1 exon
chrUn_random:36688012-36688189
Coord A exon
chrUn_random:36687901-36688011
Coord C2 exon
chrUn_random:36687519-36687900
Length
111 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCA
5' ss Score
6.37
3' ss Seq
TGTGTCCCTCACCCCACCAGGAG
3' ss Score
8.9
Exon sequences
Seq C1 exon
GTCTGTCTTCAAGCCCTTCGTCTTCGTGCCTGGCCTTAAGCCTGCGCCACAGGTGAGTTCTCCCACCTTCAGCGACGACCCCGCCAAGAAGGTGCCACGCTTCCAGAGCACGGTCGATCGGAGGCACGAGCTCTACCGCCGGCACCAGGCAGCGCTGGAGCTGATGGAGAAGGACCAG
Seq A exon
GTAGCACCGAGCCCTTCCTCACGGCCCTCGTGCTGTCCCACAGCAATGTGGGAGGCAGTGGGATGCCCTGAAGGTGCCCATCCTCAGCCTTTGTGTCCCTCACCCCACCAG
Seq C2 exon
GAGCGGGGCCAGGAGCTCCTGCAGACGCTGCGGGACCTGGAGAAGCAGGGCCTGGAGGCGGTGAATGCGCTGCTGGCGGGGAACGTGGCCCCAAAGCCAGAGGAGCTGGCCGAGCTCTTCTTCGACTGCGTGGACGCAGAGATGAAGTTTTACAAATAAACCCCGTGCAGGTGTGTTAGGAGGGGAGAGGAGCTGAGGTCGGGCTCCAGCTCAGATCCCACAGCGTTGTTCCCACCCGGGGGTGAGAAACCCTTCCTGGTGCCCTGCCCTGCTTCCTCGCCTCCTCTCCTTTTGGAGCTGTGGAGGGGAATGGTTCCACCAGCACCTTCCGCCCTGAGCAGTCAATCAGTGCTTGTGGGGGTGGCTGTGGTGCGGAAGGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011945:ENSGALT00000019483:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.317 A=NA C2=0.135
Domain overlap (PFAM):
C1:
PF123253=TMF_TATA_bd=PU(58.1=60.0)
A:
NA
C2:
PF123253=TMF_TATA_bd=PD(38.7=45.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCTGATGGAGAAGGACCA
R:
AACAACGCTGTGGGATCTGAG
Band lengths:
252-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]