BtaINT0044625 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038281 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr14:54416847-54419118:+
Coord C1 exon
chr14:54416847-54416959
Coord A exon
chr14:54416960-54419030
Coord C2 exon
chr14:54419031-54419118
Length
2071 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
AAACTTATAAATATTTTTAGGTT
3' ss Score
6.05
Exon sequences
Seq C1 exon
GAGTATATAAAAGCCAAGAAGCTCGCCTAATGTTACACATCTATCTCATTAAAGTACCAGCTCAAGCTTCTGTGAAGAAAATGAAGGAGGAAAATTGGGCCATGGATGGCTTT
Seq A exon
GTAAGTATATTTCTTTAAAAGTCTGCTGCTAAACTTAATAACACATTTGTGCTATGGTTTGTCATTAAAATTACAGAAAAATGTAAGTTTCTAAATTGAGCTAGTTAAATGCACACACATAAAATGGCAAAACTACTATTATGACTAATTTATTTTGAAAAAATAAATGATTCAGTATAAATACTTAGTAATCTAGTGTGTCTAAACTACTGAAGCCTATGACCTACAGAAGGTTTTCCTTGTAAAAGTTTTGTTACTTCAGAGCATATAGTCAGAGTTCCCATGGTCATTTTATCAAAGACTTCTGGGCAGTGTGTAAGTATAAGATTTGTTGCTTCCAACTGCCAGTTTAGAAATTCCATTCACTTAAGTGACTGAATAGAACAGGGTAACTCCAAAGTGAGGTTATGGTAACTGTTCAGAGGAAGTGGCTCACATAACTTCTTCTTCATAGCCAACTTTATAAAATTTTCTAAATATGAAGAGTAAATTTGGTTTCTGAGGGAAAATAAAAAGTGCATCCTGTTTCCCTTTCTGTGCCATTATTCATGGAGTTGAGGTCTAACTCATCTTCAGTGCACTTAGATTGTTTCATTTAGGAAACAAATAAAATGAATACATTCATTTAACTATTAGAGTTTGAGCTTTTCTTTTTAGAAGCATTTTGTGTCTAAAAATGACCTTGCCCAGGGTATTTCTGATAATAAGGAATAAATCACTTGTGAAATGTCAGACTTACATGAATAATTTGGTATAATATTTTGCTTTTTAGGGCGAGGATGCAAGGTTTTTTGCAGCTTTCACAAGAACATACATGACTTAGATAACATTGAAAATAATCAGGACAAACTTTGGGGTAAATTCATATGACTAGTTATCAGCAACACTGAAATGTATCAACTCATATTTTATTAGTGAGATCAAATAACACTATGCATGTGACCTATTTTTTATGTATAGAACTTTACATGCAAGGTACAGTTAATAGCATTTGCAGGATTAGGTAGAGTCACAAAATCTCAGGCTCAGCATGCAACAAGTTCTTTCTCATGTTTCTGGGGCTAGCTTGGGGGGCTCCATTTGAAGCTGTGGTATCAAGTTCAGGTTGCTCCAGGTGTCTCATATCAGGTCCAGGCTGGAGGGACAGCAGCTGCCAGGAACATGTCCTTCTCTTGCCAAAGGCCTGAAACTCTGAGGGGCAAAGTGGAAATATGTCTCCCTTATTTTAACAGCCCTATTGAGATATAATCCATGTACCCTACTCATTTAAAGTGTACAGTTCAGTAGTTCTTACTATATTTACAGATGTGTAACCATCACCACAGTTGATTTTAGAATATTTCCATCACCTCAAAAAGAAACCATATCCTTTACCTATAGCCCAACCCATCCACCCCTCCTTTCTCCCCCAAATCCCAGCAACCACAACTCTATTTTCTGTCTAGATTTCACTGTTCTAGGCTTTCATATTTATGAATCATACAATCCCTGGTCTTTTGTGACCATGGATTATATGGTTTCTTTCACTTATAATGGGAAACATGCCTCTTAAGGCCTAGGCTTGGAACTGACTTATTGTCAATTCCACCCACATTCCATTGGCCAAAGCAAGTCACAGGACAAAATCCAACTCACTGAGGAAGAATGAATACACTTTTCATGAATGTTAATGGGAAGGGAGAAAATTGTGCCTGTATGCTGAACAGTAATTGAATCTACAAAGTACAGTATTATATTTTAATTTTTAATTGACTACTTGCCTTATTCTGTTTTATCATATCCTTGGTCTTTTTCTTGACAATCAGTTTCTTCACCTAAAAGAAATCTATAAATCTGTATCATTATATTAATAACTAATCCCCCTTATTTCCAGTATCCTAATTAAAGATGAAAATTTTCATTTTATTTTTAATAATGGTAAATTTGCATGATGTTCTGTTTTACACAGAAGATATGGAGGAAGGAATTGTGCATAATATTCATTTTATATTAAGTCTGAATATTTTCTAAGACTGGGAAAATATATCTGTGGCCAACTTTTATGTTTAATCAAACTTATAAATATTTTTAG
Seq C2 exon
GTTTCTGCTGAGCCTGATGGAGCTACTTATGTATTTCAAGGATTTATTCAGGGTAAAGATTATGGGCAATTTGGACTACAAAGACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038281:ENSBTAT00000027766:64
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]
SPECIAL DATASETS
- Pre-implantation embryo development