GgaINT0004157 @ galGal3
Intron Retention
Gene
ENSGALG00000000233 | SP2
Description
NA
Coordinates
chrUn_random:50259717-50260468:-
Coord C1 exon
chrUn_random:50260275-50260468
Coord A exon
chrUn_random:50259932-50260274
Coord C2 exon
chrUn_random:50259717-50259931
Length
343 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
GGCCGCTGCTCTCCCTGCAGGCG
3' ss Score
10.55
Exon sequences
Seq C1 exon
GCCTGGGGACCAAGGGAAGAAGAAGCACATCTGCCACATCCCCGAATGCGGGCGGACCTTCCGCAAGACCTCTCTGCTGCGTGCTCACGTGCGCTTGCACACGGGTGAACGTCCCTTTGTCTGCAACTGGGTCTTCTGCGGGAAGCGTTTCACACGCAGCGATGAGCTGCAGCGGCACGCGCGCACACACACAG
Seq A exon
GTCTGTGGCCCTGCATGCCCCCCCCTCGCCCCCCAGGGCAGCCCCCCACATCGTAGCCCGTGCCCTGCGAGGCCCTGAGGGCTGGGGTGGGCTCAGGCCTGCACCGATTGTCCTTAGGATGTGGGAGAGATAATGGGAAGGGATTGGAACGCCGAGGGGCTTTTTGCCACCTCTGGGCTCTCAGGGTGACCGTGGGGCTGCAAAAGGGGCCTGGCCTGGGCATTGGCACCTCCCTGGGAGGTCCCTGCGGCCGTGACTGAGTGCTATGGGGACGCAGCGGGGCTGGGGGTGTGACAGTGTCCCCGAGGTCCCCCAGCCCTGACGGCCGCTGCTCTCCCTGCAG
Seq C2 exon
GCGACAAGAGATTCGAGTGCGCGCAGTGCCAGAAGCGCTTCATGCGGAGCGACCACCTGACGAAGCACTATAAAACCCACCTGATCACCAAGAACTTGTAGGGCTGGGAGCCACGTCTTGAACAAAGCCCTTGGGGGGGTCACGGTGAGGGGCCGCCGGGCACCGACCTGTCACCCCGCCGCCCTCGCAGCACTCCAGTCTCCCCGGGCCGCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000233:ENSGALT00000000312:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.242 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=42.4),PF134651=zf-H2C2_2=PU(41.7=15.2)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(54.2=38.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTTCCGCAAGACCTCTCT
R:
GAGACTGGAGTGCTGCGAGG
Band lengths:
342-685
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]