GgaINT0136508 @ galGal3
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
NA
Coordinates
chr23:5088419-5093109:+
Coord C1 exon
chr23:5088419-5088545
Coord A exon
chr23:5088546-5092906
Coord C2 exon
chr23:5092907-5093109
Length
4361 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CGGTCCTCTCTGCCTCACAGACT
3' ss Score
8.9
Exon sequences
Seq C1 exon
CTGAGTGTGGGGGTTCTATCAAAGGAGAGACGTCAGGACGGATTCTGTCCCCCGGTTACCCCACACCCTACGATCATAACCTGAACTGCATTTGGTCCATAGAGGCAGAAGCTGGCTGCACAATAGG
Seq A exon
GTGAGTGGAAGCTCTTCATGCTGGTTGTTACCTGCTATGGTTGTTACCGTACTGATATGTATGTTGGTATATATGGTATATTGGTTGTATACCATATTGGTATATGTGGTTGTTACCATATCCCAGTGTGTGTCCAAGTGATGTGATCCTGAAATGGGGATGTATGTATAAAATTGCTTGGAAGATCACATCCCTGAAAAGCACAATGGAAGACCACGAGGGATCGGGTTGGTCCTCCATTTGCACTGCCAGAGTAAGTTAGCACCAACATGGATGATCTCTGAGTTGCATTTGTGAGAATGAATGGTGAGGCATGGGGGTCCCCAGCTGGAAAAAATGAGGCCCAACACCCAGCTTTCATCTTCTAATCTTATTGCTTTATGGTTTTAATAATAAAAAGAACAGATAAAACGCAGTTACTCTCCAGAAGGGAAGGCTCAGGATGGTTTCTGAACATCTGGTCTGTTCGGAGACCCAAGGCTGTTTTCTTCTCCTGCTCCTCTGACTTCTGTTCCCGTTTTGTTTTTACTTCCCTGTTGGAAAATGGCAGTTTGGAATGTAATTTGTTCGTAAGTTATGTGGATTTGGTGGTTAAGGAGGCATTGTGCTGAGAGCGGTTGGCTCATAACGTCCGTGCAGTCACCGGCAGAATCCAGGCGGTTCTCTGCCCTCTGATGCTTCATCTGTGATCCCCGCTGCTTGCTGCTGTTCCCAGCGTGCCCCCATCCCACCAAGCCACGTCTGTGCAGCTCTCCCAGGGATTTCAGCCCAGCGAAAGCCACCCTTAGCAGTGTGTTGGCAGGTGAAGTTTGTGCTGAACTGATGGGACTGGGGGTCCCAAAAGAAGATTATGAAGCTCATCCAACAATAATTCTCTTCTCAGGCTCTCCCCACCTTCCTTCCTGCATGTTCTCTGGGGCATCAGCCCCAGTTCTGCACTGCCCCGAGCCCTGCTGCCATTCAGTGCTGTGCTCATTCATTGCCCTGACACTTCTGCCTTCACCACAGATCCATTGCTGTATCAGCACTCATCTGCTCTTCAGCATTGACTGCTCATCACGCTGAGCGCTGTGGTGCTTTTGTCAATAGATGATGTGGGGATAGATGTGGTTCAGTGTTTTCTTTCTTCCTTAATGGAGAAATTCCCTCCATTAGGTGTGCTCTCAGTGCGGTTCAGTAGCGGATGGTTTCTGGTATTGCTCATAGAAGGGAGAGCAGAGCCAGCTCAGTTCTGCCCGAGCAGCTTCCAGTTGAATTCTCCTTTCTATGTCAGTGTCCTGTCCAGGATTCTGCAGGTTTCTGTCAGGCAGTGTAGGCACAAACCCCCACTTCTGTCCCCCCAGAAGCACAGGAGGTGGCCTCATCCAAAGACTGCTTCAGCCAATGCAATCCTGTCCTATCAGAGCACCCCCGGAGCAGAGCTGTGGGTTCGTGTTTGCAGCATCACAGAGCGTGGAAGGGAGCAGGGCTGGAATGAAGGGATGCAGTGATGTCAGACACCCGTGTGGCAGTGCACCTTGAGAGCCTCCCTTTGTCACCAGAGATGAAAGCTCCCTTCTTCGGCTCCTTTATTTGGCAGCACAGGAGAACAGATGATCTCTGGGTAGTTGAGAGCACATTCTCAGCAAGTTCATTTTTATGGTAATCCATTGGAAAAATAATCCTCTTCACGCATGATGCAATTGTATAAAGCCCTCATTTATAACCTACATTAAAATTAATCACCACAGCTTTTTGAATAAAGCTGTATCTGCACAGAAGGAGAAGGAAAGGAAGGAATGAGAGAGAGAAACGAGTCTGTCCATTACTGGCATGAAAGTTAAAGGGCTGTGCTGTGAGAGGGGATTAGTTGTGCACATGTGTGAACACACACACACACACACACACACACACACACACACCCTGCAGCCACAGTGCCACGGCTTTGTGTGAGACCCCGGGGAGAGCAATAGGAGGGAAAAGCAGAAAGGTGTGCTGCAAAATGAACGGCACCTGCCTGCAAAGTGCTGCGTTGCGTTGCACTGCAGCGATCTCAGCGTCCTCACAGAGGCTATGGGTGCTGCTCGCCCTGCTCTGATGAACGCTATCGGCAGGTTCCATTCAGAGACCCGTTGAGAAATATGAACAAAAAGGTCTGCCTGTTCCAGCTGTCACCCACGGAGACCTCTGCGCACGTAATGTCAAACAGCTTCTAAGTTTGGGAACCAACCCCTTGGTTGGAGAGTGGCAGCAGGGAGCCCTGCATGCTGCTGTCAGCACCACGGCCCTGCAGCCTCGGGGGGCGCTGCCCCATGGAAGGGGGCGTCATCCCATGGGTGGATCTCAGTTGGTGCCTTGGATGGGGAGCACCACCAGAAGGCCTTGGGTTGGTCGGGCAGCTTCCATATATACACCATATGCACCTCATTTGTTTTTAGCTGCATTTTTTTTTGCATGTAATTGAGTTTTGCCTCTCCTTTGTTTGCTAAACCAGTTGCTCTGCCTTATCTTAAATTAAGCCCTGCTGGGAGTAGAGTCGGGCTGACAGAGAAGTGGTGCCATTTGGTTGCAGACGTGCCTGTTGAACAGACAGATTGCTTCAGAGCACACAGATTCTCATAGTGCAGTGTTCTGTCCCGGTGGACTCCTGAGCTGGTGCCGGGCAGCCCATGCCCTGCTGCTGTGTCAGCTGGTTGTCAGGGCACGGCTCTGCCCACGCTGGTAAAGCCTCCAAGTGAGTGAAATGAGGAGGGGGCTCACAGCAGGCAGCAGCTGCCCCCGCTCCCCCCCCAGCTCAGTCTCCGCTCACATCTGCCCTTCCTGAGGACTTCAGCACAGGTTTTGCTCTGGCGGTTCTGGCTGATGGGCACTGCTCAGCCTCAGAGCATCGCCAGGACGGGCTCCTGTGCTCAGCAGCTTTGTTGGGATCCATCCTGATTTTCTGTGACTCTGGCGCTTTTTTTCCCCCTCGTTGCTGGGTGGATTTGTGATTCAGCTCTTTGGGTTTCTGTCAGATTTCCAGGGCCCATCAGTTGCTGAGTATGTGCAGAATTTGGCTTTTTCTTTTCCCTTCCCTTTTTTTCCCTCTCTTTTTTTTTTAACGATTCTACCCTACTTCTGTACATTTGCCCCGGATAAATGGGAAAGCAGCCAAAAAACCACATCCGTGTCTTCTTCCGTGTGCCGTCACTGCTTTAAGCCCATCACCCAGCTGTTGGTTCTCACAGGGTTTCTCAGCGCCCCATTTCCATGGCACAGCTCTGCTCCATCTGCCCGATCGCAATGCTGGGCAGTACTTCCCCCAGTGCTGACTTGGCAGTGAAAAACAATGCACTTCTCAGGGCTGACCCCTGATGTACTGCAGCCTGGAGCTGATAACTCCCTTGGCTCTAACAAGAGCAACAATGGCATCTGATGCTTAGATGCTATTTGCACTTGCTATTTGCCACCCCCCTTTGCTGCCCTGTTTCATTAACCCCTGGGGCACCTCACGCCCCGCTGAGGGTTTCTTTTCCAGCACGACGCTATTTAAATAAAGAGTGGTGTTATTTTCCTTTCCTGCTTTTTCCCCCTGGTGTACAAGATTAGCTCGGTGCCAGGAGCAAAGTCTTTGATCTGAGAGCAGGTAACAAAAATCAATGCATTTTATCGGTAGACAAAAAGCTGCTCCTTATAGGGCACCAAAGAAGCAAAAGGACAGCCAAGGTTGTTGCTGTGCGCAGCTACAGGGACAGCGTGTGAATGGCACGAGAAGCCATCGGTTGTCTGGAGGGACCTTAACACATTTACTGCTAATTTTCCTTTTGGAATAAGTTTCTCAGTACTTCAGTGGTTGTCTGTAATAGAGCTCAGTAAAACCAAGGGCAAAGCCTCTGTCCTCCGGTTCGCAGCCTCCGTGCCTCCCTGCTGCACGTTCTCTGTATGTCCCTGACTGAGCCCTGTGTCTGTGACAGCTTCCACCGTGAGGTGAGAGCACACGCAGTGTGAAAGCAGCTGTGGACTTAAGCTGGGGACCGTCTGCTGCCCACAGTTGGCCTTTGGAGCTCCACGTTACTGCTCGGGAGTGTGGGGACGGCTCCGTGGGTTTGTTTGCTTGGGGAGCACCAGAAAGGGGACAGAAAGCACTGCTACCCATGCCTTGGTTGTTGGCCATTGATGGATGTGTTAGCAGGGAGGTGTGCTGCTAGAAGCCCTTGGGGTTTATAGACAAACATTGGCAGAGGGCTGAAATACTTCGAGGTGAGTGACAGACAGCAGGAGAGTACATCTCCTCTTCAGTGGCTCCGAGGTAGCTGACGTTGGTGTAAGTACTGCTGTAGCCCTCCCAGCAATGAAGGCAGAGCTCGGTTTGGGTCTGACCCCCGGTCCTCTCTGCCTCACAG
Seq C2 exon
ACTCCATTTCATGGTTTTCCACACCGAGGAGTTCCACGACGTGCTGAGGATCTGGGACGGTCCGGTGGAGAATGGGATCCTCCTGAAGGAGATGAGTGGCTCCGTGCTGCCCAGCGACGTCCACAGCACCTTCAATTCCGTCATCCTTCAGTTCAACACTGATTTCTTCACAAGCAAGCAGGGCTTCGCCATTCAGTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000033174:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(37.4=93.0)
A:
NA
C2:
PF0043115=CUB=PD(61.7=95.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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]