GgaINT0136527 @ galGal3
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
NA
Coordinates
chr23:5128418-5132226:+
Coord C1 exon
chr23:5128418-5128563
Coord A exon
chr23:5128564-5132145
Coord C2 exon
chr23:5132146-5132226
Length
3582 bp
Sequences
Splice sites
5' ss Seq
ATGGTCTGT
5' ss Score
2.86
3' ss Seq
TTCTTTCACTGTCTTTTCAGCCT
3' ss Score
8.72
Exon sequences
Seq C1 exon
GGATGGTCCACAACAAACAGCCCCGCAGCTTGGAGTATTCACTGGCAACTCTGCTAAGAAGTCAGCCCAAAGCTCTTCCAATCAGGTCCTGGTGAAATTCCACAGCGATGCTGCAAATGGAGGGATTTTTGCCATTTACTTCTATG
Seq A exon
GTCTGTATTGCTTCCTGTGTGATGCATACACTGTTCCTGCCCTTGGGATGCAGAGGGGCGTGGGTCAGCTGTGGCTTCTTGTGGGGAAGTCTAGTTCTAGGGGAGACAATATGTGGAGGAAATAGGCTTTTACCTGAAGTCTTCTGCAATGGAGTGCAGTTCTCACAAGTTTGAGATTGAAGGTCTCTTGTGCAGTCAGGTGCTGGCAAGTGGTCACGCCGTCTGGGCAGATGCAGAAATCCATCTGTAACATTGTGATAACTCAAGCACAGCAAAGAGCCCACGCACTAACAGCCATGCCAATCCTGCGCCTCTCTCAAGGTGATGCTGTAAATACTGTCCTCTCCGTGGCAGATCCCATTATGGATAGCTCCACTCTGTTTACTTAAAGCTCTCCCTCTCTGCAGTTTTAGCTGGATACGGTATTGTCTTTCCAATGCCATGCTAAACCAATTGGGTCATCTTGCTGTCCTGTTTTAAATGACAGCTGTGTTCTGACTGAGGGGTGACTTCGTTTCCATGGGGAGGAAAATGATTCTTGTAAATCCCTGAATTATTTGGGGATTCTTTGGTGTGAGTGCAGCTCACACCAGAGAGATGTGCTGGGTATTACATCAAAATGAGAACATTTGCTTTCTGCCTCTAAAAGAGGACCCAGTTTTAAATTGGATTAGCTAACAAGTTGCTACGGCTGTACTGGGGTTTTGGAAGGTGCAAATGGAGACCTCCTCTTGCTTTGGTAATTTGCTTGCAGCAACTTCAGCAAAGTCTAACATGAATTACACGATGAATCTGTGCAGAATGTTTCAGCTTACGCTCAGTTCCAAAAGGCAAGAATTATACAGATAGGCTGAATTTAAAGAATGCTTGCCAGGCTTCGGAGGGAATTGGTTTACTGCTGCAAAACACTGCAAGATTTATATTACCAGACCATGGTGCTTATGTAGGAGTTATGCAGAAAAACAGGAGTTAGGCAGTTTGGTGCAGAAATGAGCAGTATGTGAACACTGCTGCAGCTGAGCTTCCTTTTGTAATATGAATTAGTTACTGTCTTTGCTGTGCTTAGAGCCCATCAGCATATGGTGCTGTTCTCTGGTCTTGACAGCCCTTCATACTGAGGTTTCTTTAGCTCATGGTTTCTCTGAGGTCTGAAGCCACCCTGGGCTGTCCAGGCAGGAGGTCTGGAGTGGTGCTGGAAGGAGTAACGTCAGCCAGCAGCCATTTGGAGCTCGTTTCCCAGATGGGCACTCTTGGCCTTTTATTAAAGCACAGCTCGCTGGGTTATTGGTCCCTTTATGCATGGGGCTTTAGTATAAAGCCTAACCCCAGAGATTCACTGATTGAGGTAGTTGCCTGCAGGGTGAGATTCCTCTCATTGTGCATGTGGAGCCTCGTAGCACTGGGGAGGTGGAGAAAGGGGAGAAGTGTTCATTCCGGGCTCGCACAGTGCAGTCACTTGCAGTGCTGGCATTGCTCTTTGGGGTGTAAGTGCAGGAAATGGAATTTCCTGGGGATCTGTAGCAATGTGTATTTTCATTTCTCAGCCGCACGTTGGCAGATCTAGGACATAGGCACTCTCCTTCAGCTTTAAATTGTCTTTTTCCATGCAATGCAGATCAGCAGCACCCTTGTCAGAGAACCATTGCTCTTTCAAATGCCTGCAAAGAAACATTTCCTCAGGGTGGAGGAGAGGAAACAAAAGAATGATTTAGAGAGCTGGAAGATTGAATAGCAGCCCTTGAAAAATGATGATGTGGCACCTGTTATTAAATGGGTTAGCTCAGGTGCCAGCTGAAGTGTGAGTGTGATGGGGGGGTTTATGGCACTGTAACTCAGAGGGTCCCACTGTGGTTTCAAGGACGGGACTCTGTTTTGTCCTGGTGAGAACAAATGGATGTGCTGTTGAAAGGAGCTTTGCCAGTGCTGTATCACCCATATGCTGAAGCCTTCTTAATCGCACCTCTTTATTGAAATATGGCCCATTAAGGAGAGGAGATTAATGCTGTAAATGTGGGTTATCTTTCCACTTCAATAGATGATGTCAAGTGCTTTTTAAATCGCATTTAATTTACATTTTTGTTGCAGGTTCCCCCTTCCCCCACTGTCAAACATCTGTTTAAAAGATTGCAAACAAGTGTGTCCCTCCTGCTCGTGGCTGTGTAGCAGAAGGGCTCTCTCCCACTGCCCCATCCACTGCTTCTCCCCTCCTGCACACACACAGAGGTGATGATGACAATGCTGATGGTGCCACACAGTCCCAGGGATCAGTGAGCTGCAGCAGAACCCCATTCCTGGATACAGTGCAGTCATGGCATACAGAGTGCTCCGTGCCTGCAATGCTGACCTTCCAGCATTATTGTTCTGCACCACCTCAGGGGGTAGGGAAATTGGGATGAGAGGATGGGAAATCTGCTCCTTTACATGTGTATTTAAGCATTATCATAAGCCTCATTAAGGTTGCTGCCAGCTTCGCTGTGGTGTGAAGAGTTTGACATAGTGGAGTTGGTAAGAATTAATATTCAGTGGCAGCTTGAGCTCCAGTATCTTAAATTAAAGGGCTGATATAAATTTCAGAGGAAGTTATGCTTGTCCAGGGTCAGGTGCAAGGGGAGCAAAGATGCACAGAAGTGCTGAGCAAATAGCAGAAAATGTCTTTCATTAATATTCATTTAGTTCCCAGTACCATTTTTTTTTCAATTTAGCCATGCTCACAGCTCCTGTGTGTTTATTTTCATAAGCAGAGCAGTTCTCAAACCTCATGCACCCCTCTCCCTGTAAGCAGTACGTTTGTTTTGTTCCGTGTTTGCTCATCTTTAATTTTTGATAGAAAATGTGCTCTTTGCAGTGTATTTGGTCAGGTGCATCAGTCAGGAAATCTTCTGCTCCTCGACTGGAGTCCTTCCCATGTAGCTACCTGGTGCCTCTGAAGAAACACCTAAATACACAATGACTGCACGGCTCTGCCTGGTGTGAGATGTGAGCCTCGCAGCCTTGCTGGGCTGCTCTGTGACCTGAGCTCCATACAGAGTTTGCAGCTGAAAACGTTTGCACTCCTGGAGTTATCTGCAGGAGAAATTAATGAATAATTCTGGGTTAAAAATAAGTCATTGAGGTCTTTGATCTCTGCTCAGGGTCAAGATGAGATTCTCTGAATAATTATTGTAATTTACTTGGTGCTGTCTGAGACTGCTCCTCTTCTGTGACTGACCTAACCTCAGTGAGGGTCACCGGGGTCTTCTCGTGGTATCCCGGAGGACAGTAACATTGCATTATGGCAACACCCAACAGTTACCATTCAGTGCTCATCCAAACAGTCCAATGGAGCCCAGACACCTCTGGTTCCACAGACTGATGAAAATCTGTTTCCTATTAGATGCAAAAAAAGGCTGTTCTGGGGCACAGGTAACTGGAGCCATCTCTGTAAGTGTTTGGAGAGGAAAGGGCTGGTTGCATTTCTGCCAATTCCTTCTGCTGGTCAGGGGAGGATTTGCTCCGATGTCTGTTGTGCTTGGCACTGAGACAGCCATGGCTGCTTTCATCCCCAGCTTTACATTTGCTGCTCTTCTTTCACTGTCTTTTCAG
Seq C2 exon
CCTACCAGCTCTTCAGGTGTCAGCCTCCGACCATGGTTCCCAACGCAGAAATCATCACTGAGAATGAGGAGTTTAACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000033174:49
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(44.8=94.0)
A:
NA
C2:
PF0008415=Sushi=PU(35.6=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]