GgaINT0097827 @ galGal3
Intron Retention
Gene
ENSGALG00000006028 | CSRNP1
Description
NA
Coordinates
chr2:5164780-5165995:+
Coord C1 exon
chr2:5164780-5165039
Coord A exon
chr2:5165040-5165698
Coord C2 exon
chr2:5165699-5165995
Length
659 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TGCCCATGTTTTGCCCTCAGCTC
3' ss Score
9.4
Exon sequences
Seq C1 exon
CCACGTCCATCCTGAAGAAATCCAAACGGCTAAAGAAGAACAACGTGGAGTTTGACCGGGTCACTGTGTTCTACTTCCCACGCTGCCAGGGCTTCACGAGCGTGCCGAGCCGTGGGGGCTGCACGCTGGGGATGGTGAGCAAACACAGCTCCTCCCGGCAGTTCACGTTAGCAGAGTTCTCCAAGGAGCAGGAAAACATTCGTCGGGAGAAACTGGAAGAGAAATTGAAAGAGGAGAAGTTGGAAGCCTTGAAATGGAAA
Seq A exon
GTGAGTGGCTGGATTGGGGGTGTCTTTTCTCATGGAGGTCTTTTCTTTCTGTTGGTCTTTCCGAATCCTTGGGGCATTGATGCAGAACATTCTGTAGGTCTCTGAGAAACACAGGTCAGTTCTCTGCCTTGAAAGAAGTGATGCTCAGCTCCCCTAGGAGGTGGGACCTGAGTGAGATGCTGTGCACCCCATGGTCTTTGGGCTCCTGTGTTTCTCTCTGAAGGCTCTGAGACAGATTCTGGTCATGGAAGTGGCCGCCACTGGGGCAAGTCAAGAAGTGTCTGGACAGTGCTCTCAGATGTATGGTCTGATGTTTGGGTGGTCCTCTGTGGAGCCAGGAGTTGGACTTGATGATCCTTATGGGTCCCTTCCAACTTGGATTATTCTGTGATTCTATGATTCATTTGTTGGAACCTCCCTGGCTACCCAGGGAGGTGGTGGAGTCACTATTCCTGAAGTTGTTCAGGAAACATGGAGGTGTGGCACTGGGGGACGTGGTTAGTAGGCATGGTGAGGATGAGTTGGGGTTGGACTAGATGACCTTAGTGGTCTTTTCCAATCTTTATGATTCCACGATTTCTCCTGGCCTGAGCTGTCGAGGGTTACTGTCTTGGTGTCCCTGAGAGCTCCATAACACTTTGCCCATGTTTTGCCCTCAG
Seq C2 exon
CTCACCATGAATGGCACAAAGGAATCGGAGGAAGCCAACCAGCTCACCATTGAGGACATCTCTGACGATGACATTGACGTCAGCAATGTGGACCTGGAGGATGGCTTTTTCCTCCAGCCCTACCCGGCCAAGAAGAGGCGTGCACTGCTCAAAGCTGTTGGGGTGAAGAAGATTGACAAGGAGGAGAAGCGGGAGCTGCACAGCATCCGTCTGTCCCGGGAGGACTGCGGCTGTGACTGTCAGGAGGTCTGCGATCCCGAGACCTGCAGCTGCAGCTTGGCAGGCATTAAGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006028:ENSGALT00000009704:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.071
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAACGTGGAGTTTGACCGG
R:
GGTAGGGCTGGAGGAAAAAGC
Band lengths:
346-1005
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]