GgaINT0045615 @ galGal3
Intron Retention
Gene
ENSGALG00000010971 | CSRNP3
Description
NA
Coordinates
chr7:21204118-21206522:-
Coord C1 exon
chr7:21206226-21206522
Coord A exon
chr7:21205159-21206225
Coord C2 exon
chr7:21204118-21205158
Length
1067 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TGTATTCTCTTTTTCAAAAGGTG
3' ss Score
8.43
Exon sequences
Seq C1 exon
ATGACAAAGAATGGTACAGTGGAATCTGAAGAGGCTAATACATTGACACTGGATGACATTTCTGATGATGATATTGATCTGGACAACACTGAAGTAGATGAGTATTTCTTTCTACAACCCCTGCCAACAAAAAAGCGAAGGGCACTGCTGCGAGCTTCTGGAGTGAAGAAGATTGACGTGGAAGAAAAACATGAGCTACGGGCCATCCGGCTGTCCAGAGAGGATTGTGGCTGTGACTGCCGTGTGTTTTGTGATCCAGAAACTTGCACTTGCAGTCTTGCAGGCATAAAGTGTCAG
Seq A exon
GTAAATGTCTATATTATTGTCATCATTTAAATAGCAAGAGAAGGGGTTGTAGAGGTGTGTGTGCATGCACTTTTTTTGTTAAGGTGGTAAGTACTGAAAGATTATTAAGTGAATTATTAAACAGTAACACTTGTGGATCTTAAACTAGTTTCAGGCTTGGATTTAAGAGTATGTAGTGTGCAATACAATTTTTCTCCTTAAACACTTTTATGATCAGTTTAGGCATATACACTGTTCAGTATTTTTTTTTCTTTGTTCATACATAAATATTTTCCTCCTCATGTTCCCCTTTGGCCTTTATCTAAACATGCAAATGGAAACAGAAGAATCAGTAGCCTGCAGATTTCACAAGGGTATGTAGCTTTTGTTTTAGAGACAATTCACATACTGTCCACATGTGAATTATAATCCAAACTCAATAAGAAGTAATAAGTCGGACTACGGTACTGACCTTTCTTTAACATGCATGACACTTAACATGCAAGCATGAAAAACTGCATGTAGGCAACAAAACATAGCAGGTAGTTTTTCTCTCTGCAGATTTAACGGTATCGCATATTGTACATATAGCTGTAAATGTACCAAATAGGAATTCCCTAAAAGATGGTTTCTGCTAATTACCATGAGTAGCTCTTATGCAGCTGAGTTGGTTTATTTGTATATGCATTTTTTTCATCATTTCCTAAATCCCAGCTAAATTTTCTCTGCTGTTCTGAATAATATATTCCCTTTGCTGCTCCTGTTTTCATCTTCACATTTTGAGAAGATGTACTAGATTGATTGTTTCATATGGCTCTCTTCTGCATCACATTTGATGTTTAGGTATTACAGTGTAGATAAAAATCACAGACCTTAAGCTAATACAACTACTTGATTTGTGGATTCAGTCATACTTTTATATGCTTAAGATGGATATTATGAGACATACGGATATTTGACATGGCTTATTCTTGCAAGTACTTCAAGTGAATTCCACTTCATCTCTGTCTATTTTTAGGCTTTCTAGGTTCTGTGATATGACCAGGTTTATGCTAAGTATTGTTAATCTGTATTCTCTTTTTCAAAAG
Seq C2 exon
GTGGATCGTATGTCTTTTCCATGTGGTTGCACTAAAGAAGGGTGTAGCAATACAGCAGGTAGAATTGAATTTAATCCTATCCGTGTACGGACTCACTTTTTGCACACAATAATGAAACTTGAATTGGAGAAAAATAGAGAACAGCAAGTTCCGTCACTAAATGGCTGCCACAGTGAGATAAGTGCACACACTAGTTCTATGAGTCCGGGACCCCATCCGGTTGAATATTCAATTGCAGAAAATTTTGAGATTGAAACTGAACCTCAGGCTGCAGTCATGCATTCTCAGTCAGCCGAGGACTTGGACTGCCCTGGGGAAGAGGAGGAAGAGGAAGATGGGAGTAGCTTTTGTAGTGGAGTTACTGATTCTAGCACTCAGAGTTTAGCTCCTAGTGAATCAGATGATGATGAAGAGGAAGAGGAAGATGAGGAAGATGATGAGGAAGAAAAAGCAGATGACTTTGTAGAAAGTATGAGCTCCCATGCTGACATGGTGCCTCTTCCTTCTGTCCTTTGCTACTCTGATGGAACTGCTGTGCATGAAAACCACTCTAAAAATGCCTCATACTATACTAACTCTTCAAATCTATATTACCAAATAGAGAACCATGTTGCTGGCACTGCTAACCAGATTGGCGAGACTTACTCAGAAAGGGATGCTGTCAAGAATGGCAGTCTTTCTCTGGTGCCTTACAGCATGACTTCAGAACAGTTTGTTGACTACACGCGGCAATCAGAGGAAACTTTTAGCAGCCCTCATTACCCTTCTGCAAACCCCTCAGTGATTGTTTGCTGCTCATCTTCTGAAGGTGACAGCAGTGCTCCATGTAACAGTTTATACACTGAGCATAGGCCAAGTCACCCTCAAGTGGAATTTCACTCATTCTTGAAAGGTCCTTCGCAAGATGGATTTGTTCCAGCTTTGAACGGCGAGAGTTGTGTACAAGAGCACCCTGCTGAGAATTCACTAGTCCTCTCAGAAAAGAGTAGACTGCACGAAGAGTGCATCAAATCTCCAGTGGTAGAAACAGTACCTGTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010971:ENSGALT00000017873:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.523
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF119423=Spt5_N=WD(100=27.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCGTGTGTTTTGTGATCCA
R:
CGGCTGACTGAGAATGCATGA
Band lengths:
355-1422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]