GgaINT0078153 @ galGal3
Intron Retention
Gene
ENSGALG00000016341 | CSMD1
Description
NA
Coordinates
chr3:92911144-92914133:+
Coord C1 exon
chr3:92911144-92911321
Coord A exon
chr3:92911322-92913987
Coord C2 exon
chr3:92913988-92914133
Length
2666 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGT
5' ss Score
7.12
3' ss Seq
TTTCATGTTTGCTTTTCTAGGGA
3' ss Score
10.81
Exon sequences
Seq C1 exon
CTCCTTGTGGCTATAATGTGTCTGCTCAGAATGGTACAGTTTATTCCCCAGGATTTCCAGATGAATACCCAAATTCCAAGGACTGTACTTGGTTGATTGTTGTTCCTCCAGGCCATGGGATTTATATCAATTTTACTTTACTCCAAACTGAACCTGTGAATGACTACATTGCTGTTTG
Seq A exon
GTATGTGATTTTTTTTTTTTTTTAATGTGACCTCTTTCTCAGTCATTCGTTGAATGCTCACTGTCCCCAAGCTTTGGCGTTTGCTTGGTATTGCCCTTTAGATTGTCATATATGCTCAAGAATCGCATATGCAAGAAGCTGTACATGTAAATAATTAACATGATATATCATGGTATGAATGCATAAACTTATTGTTCTAAAAGTACTTTGAAACATACTCAATTATCATGCAGTTCTTTGAGCTTCTCTATGTGCCCAGGAAGATACGAGTTATATTTTACAGTAGCAATGTGTAACCTGTTTTCTAAATGAGAACGAGAGGCCAAAGTGATGTAAGAAAGCTCCATCATGTTAAATTATGTGTTCCATGAATATAGAAGGCAATATCTGTTGCTTGCAGCAAAGAAGTTTTGACATTTTTAGGTGTTAATTAATTTAGGCATTAACTTTTTCTAGTCTCTTAGTAAGGCTGATAACCATACCATCTATGTTTTCCAAACGAGGGTTTCAGCACTTGTACCTCTACATCTGTCAGCTTCATACTCTATGTTCCCATTCCCCAAGCTTGTATTTCTTATCCCCTAAACCCATCTCAATGTTGTGTTTCCAGATGGAAAATTAGATCTCAGGGCTGCCAATGTTATTTCATAAGAATTTACTGCATATGATGATGTCTCTGATAAAAAGTATGTATTCAACTATACCCATATCTGGTCTTTACTCCACGTTTCATGCAAAGTGACCTCTCTCTCCTACGTGCTGCAGATAGCTTGCACAGAATATGGGGTACAGGTTACTCTTTTTTGAGTCAGCTGCTTCCATCTGCCAGCTAGACCATTATTTCTGTACTTATTCCTGAGAACGGTGAGGTTTTTTTCCAGACAATAATATAAAATATAATACAGGGAAAATAGAATTAGGTTATAAAAGATATGTATGACTGTTTATGAACTATGATGTAGCTAACATTTGTATTGGTATTAACTTGGAATTCATGTCTAAAATGCATCCTAGGTCGTCCTGTCCTCTCTGATGGGGTAAACAAAAAGAATGCTGGATTGATGATTTTCTTTTTTAAGCCTACCCTATGTTAAATCATAAAATCATGCCAACTTTTTGAACATATTTAGCTATATAGTGTGCTGAATCCCTCAGTTGTTAGATTCTTTCAGTCAACTTTTTAAAATAATTATTTTAGAGCTTATTTATCACAGTTCCTGTTTGCCCATAAGTCACAAGCATGCTTTCTTCACAAGTTTAGAGTTATTTTCTAATCTACCAGTGATGGGAGTAGGCAGTTTAGTGTAGAGTAATTTTGTTTATGTCATTCATATATATGACATTCACTTCTGAAAAAAAGATTAAACTTTTTTTTTTTTTTTTTTTTTTTAAATAAGACAAAAGCTATCACTGACTTGGCATAGAAATGTGTGAGTTTTTGTTTTGTTTGTTTTTTTTTTTTTTTCAAATAAATTGTCAGGGTCTTCTCCAATATTCATTACTTTGACAATTATTTACAAGACAGGAGGAAGTTGAAAATACAGTTTAATGAGAAGTCTGATGTAGTTTGTTTTTTCTTACTGTCAGTGATACTAGAGCTGAAGTAGGAGGCCTGAATAATCTTGATTCACTGAATAAGAAAGTAGTAATTCATTTAAGTTACATTTTTAAAAAAATTCAAGTTGTATTGCAAGCTGTGTACACGACTTATCCTTTTTAAAAATCTTGAACCAGTTTCTCCATACAATGGATATTTCTTTTTATAACCAGATTATCTTGATGGAATTGAAACAGACAAAAATGAGTTAATGCTTGGCTTTTCAACCATGCAGCTGTAGATGAACTAATATCCCTCTAGTTTAAAGACAGTGAAAGATCAAAAGCTAAATGCTTCCTGTGAGCTTCTCGGTAATATTCAGCCATCTAAAACACATATCATAAAAGGTTTTTGATTCTGTTTAGATTCTGTACATGTAATATATAAGGCCACAGACAAGTGTCACAGAGCTCCAAAAATTCTTCAGTGATTAAAGCAGCGGTTTTAATTATTTTCTCTAGCTGTTCAGAGCTGAATGTTGGACATGATGATAATGAAAATGAAAGCAGCGTGCTTTCGTTATACTATTTCTCTTTGGTTATCAATCCTATTGTTCAGAAATACATAAACTTTCTTTCAGCTTTTTTTCCCCTTCTCTTCATCTACCCCCCATAGATGTTATAGTAAAAAGGTTCTTGGGAATGAATTGAAACAACAGAATGAACTTGCACATCTCTGTATATACATGCCATGGGTACAGACTTGAAGGATCCCAGTGAACAGTAAGATCGTAAGACTTTTGCAGATACTTTTTTTTTTCCTCTGCTGATATGCATACGAAAATATTGGCAGGAAAAAAACCATAGAAAAATTCAAATGTTAAAAAATCCATCAGTAGTTTTCTTACCCCTGGAAATACAAAGTTATGAATTACTCTTGGTTTCTCAAATACTGGGTTTAGAATATAGAAAGAAGATTATATTAGTAGAAATAAAAGCAAATATATTCTAAATCATTAGAAAAGACATTCGTCAAAAAACTATAACTTACATTACAGAGAAAGGAGACTGTTATTTTAAATGTGAACTATTCTGTTTCTTCAGCTGATTTTTCATGTTTGCTTTTCTAG
Seq C2 exon
GGATGGTCCTGACCATAATTCACCTCAGCTGGGAGTGTTCAGTGGGAACACAGCTCTGGAAACAGCTTACAGTTCCACCAATCAAGTCCTCCTCAAATTTCACAGTGATTTTTCAACAGGAGGATTCTTTGTTCTCAATTTTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016341:ENSGALT00000036950:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(54.8=95.0)
A:
NA
C2:
PF0043115=CUB=PD(44.2=92.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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]