GgaINT0097828 @ galGal3
Intron Retention
Gene
ENSGALG00000006028 | CSRNP1
Description
NA
Coordinates
chr2:5165699-5168562:+
Coord C1 exon
chr2:5165699-5165995
Coord A exon
chr2:5165996-5167578
Coord C2 exon
chr2:5167579-5168562
Length
1583 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CCCATGTTCTTCCCCCTCAGATG
3' ss Score
11.17
Exon sequences
Seq C1 exon
CTCACCATGAATGGCACAAAGGAATCGGAGGAAGCCAACCAGCTCACCATTGAGGACATCTCTGACGATGACATTGACGTCAGCAATGTGGACCTGGAGGATGGCTTTTTCCTCCAGCCCTACCCGGCCAAGAAGAGGCGTGCACTGCTCAAAGCTGTTGGGGTGAAGAAGATTGACAAGGAGGAGAAGCGGGAGCTGCACAGCATCCGTCTGTCCCGGGAGGACTGCGGCTGTGACTGTCAGGAGGTCTGCGATCCCGAGACCTGCAGCTGCAGCTTGGCAGGCATTAAGTGCCAG
Seq A exon
GTACTGCCCTATCTCATGCATCTCCTCAAGGTGAAGTGGGAAAACCTCTAGGAGATACTACTGGAAAGCATCCTCCTCCCAAATTGCTCATCCCATGAGGATGTGTTAGTGCACCCACATGGTGAATGGCAGAGGGAGACGGACTGTGGGGGATGCCTTGGCAAAGAGAAGCTCTTCGCTCCTCCCACGAGGTTCCAATTTCTCCTCCCCCCTTGGTTTTATTTTTATTCTCCTTGGTGTGTATCCCAGCTTCCATCGTGCCTGGGAGCATCAGTGTCAGCCTGCAACCAGCTCTGCAGGTCCACCTGCACATCACAGGGTAACACCTGTAGCTGCACTTAGTTACCTTTATTGATTTTTCTTTATATCTTATGTTTTCGGAGGCGCCTACCCTGCTGTGTTTGCAGGGAGTATCCACTACTGTGGGTGCTGCTCACTTGCTCTGTGCTGTGGTTGCAGGCTGGGTGGTGTAGGGTGTGTGTGTGCAGACAGTTGGATGTGCACAGGAGGACTCGTGCTCCATGTGCATGTCACAGCCCCCCTCTAGTGGCTGCTCACAGCTGGGACGTAAAAGTGCCGCAGATACCAGTGAAGCAATTTGGCCTTCATCCTGTAGAGAGGCAGATGCTCATGATATAGATCAGATATTAAATATCGTGGTGCAATATACAAAAATTCACATTTGCCCAGTCATGTCTCCTTTTGGAGCATTACATTTTGCTTTTTTTTTTTGTTTTCTTTTAAAATCCTTTAACTTTTTTCGGTTGTATTGAAATTCATCGTTGTTAAGACAACTCTTCCAAAGAGCAGGTGGTGTGGGATTTTGGTTTTTTTACCTTTCTGTATTTTTTGGCTTGCTTTTAAACCTCTCAGTCATGGGACAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGGGTGAATCAAGGTGGCTTGGGCTTTGGGCGAGGGTCCTCACCCCCATGTTCTTCCCCCTCAG
Seq C2 exon
ATGGACCACACATCCTTCCCCTGTGGCTGTACAAAGGACGGCTGCGGCAACACAGAGGGCAGGATCGAGTTCAACCAGGCCCGGGTGCAGACCCACTTCATCCACACCATCATGAAGCTGGAGCTGGAGAAGCAGCAGCAGAGCAGTGAGGGGGTGGCAGAGGTTGAACCTCCCTTCCGGGAGCGGTTGCCTCAGCTGGGCTGCGCAGCAGCAAAGGGGCCCTTGGAAGAACGCACGGCGCCGCTGGCCCCCGCCTTCCAGTTCAGCCCTGAGTTGGAAGCCCTGGGGGAGAACAGCTGCAGCAGCGACATGACGGACTCCTCCATCTCCTCCCACCCCAGCGAGGACCTGGAGGAACCCTACGAGAGCCTCCCCTCCGACAAGTCCCAGTCGGACATCGATGACGATGGCTTGGCACGCATCCTCCACTTCAACGATTCGGATGCCGAGGAGGAGGGAGACCGCTGCCAGGACAACCTGAGCTGTTTCCACCCTGCCGACTTCTTCATTGAGGACCATGGCTGCGAGGCCAAGCCTGGCCCTGGGGCCTCATCCCACCTCTCTGAGTGCCTGGACGAGAATGCCAACCAGGATAGTGGTGGACTGCTGGAGGAGGCCATGCACGTGTGCTGTGACGGGGTGTCGTGCTGTGCCCCAGCCCCAGCTGAGTCGTGTTCCAAGAGCTATGCCGACCTCAGCCTTTCCTCTGACTCCTTGGATTTCTTCCAGTCCTTCTCGGACTATAACTTGGGACCCCTTTACAACTCCTTGAAGGAGTATGAGAACCTTGATAACTTCTCAGCGTTACAGTTTCAGTTGCCTAATTTCCCCGGTTTCCCGCAAGCTGGAGATCAGGGCTCCTGTTTCTTGGAGTCTCTCATTGGTTTGTCCGAATCCGTCCCCGAAACTCCAGCCCCTTTCACAGACAATCAGCTTTTGGAGGACGCCATCAAGTCATCGCTGATGGAAACAGTGAAGGTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006028:ENSGALT00000009704:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.275
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:
GAATCGGAGGAAGCCAACCAG
R:
CTGGTTGAACTCGATCCTGCC
Band lengths:
354-1937
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]