BtaINT0052842 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004754 | DSCAM
Description
Down syndrome cell adhesion molecule [Source:HGNC Symbol;Acc:HGNC:3039]
Coordinates
chr1:141815506-141817569:-
Coord C1 exon
chr1:141817373-141817569
Coord A exon
chr1:141815603-141817372
Coord C2 exon
chr1:141815506-141815602
Length
1770 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCTCTCTGCTTTACACATAGATT
3' ss Score
7.71
Exon sequences
Seq C1 exon
TTCCTGCGATGATTACATCCTACCCAAACACCACCCTGGCCACTCAGGGTCAAAAGAAGGAAATGAGCTGCACGGCTCACGGTGAGAAGCCCATCATAGTCCGCTGGGAGAAAGAGGACCGGATCATTAACCCTGAAATGGCCCGTTATCTCGTGTCCACCAAGGAGGTGGGGGAGGAGGTGATTTCTACTCTGCAG
Seq A exon
GTAAGAGCATGGCAAACAGGACAGATGAGCACCTACCTTCACAGGCAGAATAATCCTGTCCTTTCACATACGTGACTGCATGTCGGGGAATGCCACAGATCATCATCAACAGTTACAACGGGGCTCCCTTGGTCTTCCAGTGCCTGAGACTTCGCCTTGCAATGCAGGGGGTGCTGGTTCAATCCCTGGTCGGACACCTAAGATCCCACATGCCTCACAGCCAAGAAACCAAACAACTTTTTAATAAAAAAAAACAAAACAAAAAACAAATTCAATAAAGGCTTTAAAAATGGTCCATGTAAAAAAAAATCTTAAAAAAAAGAAACATTTATGAAACACTATCTCTCTACTTTTATATATAAAGGGATTCCAGAGTAGCCTGCAAAAATAGTACTTTATCCTACATGTGGTTAAGAGTGAAATTATTGCCAACATGGCAGGAAAACAAACTGTAATAATAAGAAGAAGAAGAGAGAAATGGCATACTTTTTAATTTATTTTTTTATTGAAGGATAATTGCTTTATAGAATTTTGTTGTTTTCTCTCAAACCTCAACATGAATCAGCCATAGGTATACATATACCCACTCCCTTTTGAACCTCCTTCCCATCTCCTGCCCCATCCCACCCCTCTAGGTTGATACAGAGCCCCTGTTTGAGTTTCCTGAGCCATAAAGCAAATTGCCATTGACGATCAATTTTACATATGGTAATGTAAGTTCCTGTGTTACTCTTTCTGTACATCTCACCCTCCCCTCCCCTCTCCCCAAGTCAATAAGTCTATTCTCTATGTCTGGACAAATAGCATCTTTTAATGACAGGTAATTCTGGAGAAATGACAGCCTACACTGTGCACTTTTTTTTAACTTCCTGAAAAAAAAGTCAGAAGAATTCTGCCACAAAAATATTATAAGGAAAATATTTTGCTTCTTGGGGGAAAACCCAGAGTAAAAAAGTATTGCAGTCTTTTAGAATTTTTAGCACTGCTGGTAGTTAGCTGAGTGATTCTTTTAATATGGGGGAGAAATGATGCTATAAAACACACATGAGGGACAAAAAAGTCCCGTGTTTGAAACGTGCATATCGATTCACTCTCAGATCCAATCTTGGAGTCCTGGGAGACCAAACCTTTATTGCAATGTTTATAGATCTGTTTTGTTTAGGCAGGATTGCTCTGGCTGTTTTAAAAATCCACTATGAGATTTAACCAAAACTCCTCCCAATGACACTGTTTAAATATTTACAAATACAGTACATGATGGTCTGATGGACACTCTGCCAGTGATGTAGAGAAACTTCATCAGGATGGGCTCTACTGGCTCGTGAGAAATATTTTGGAAATTGTTTGTTAAGGCTCATCATTGTCTTTTAGAGACAAACATATATATCAATAATGTAAAGAAGACATTTAATAAAACATTTATCTTGACTTAAAAACAAAATCCACTATGAGATTTTTTTTTTAAAGTGGGAGTATGTGGAATATATGTCAACCTGAATGTGACATCCTACATACATTTCACATCCAATTTAATGAGCTGGCAGCTGACATGGATTATGTACACTGAATCTATCCATCGGCACATTTACAATTGTGCTGAAATAATTTGTTCTCAGCTTTTTGTGTCCCTGTGTGTGAGTGTGTTTATGTGTGTGCTTGGGGCTGGGAGGAGAGTGAGAGTGGAGAGATTTTTGTAACCAAGAGCGCTTTGAGTTGTTCTCTCTCTGCATTCCTCTGGGTAAGATGGATTTCTCTCTGCTTTACACATAG
Seq C2 exon
ATTTTGCCAACGGTAAGAGAAGATTCTGGCTTCTTCTCCTGTCACGCTATCAATTCATATGGGGAGGACCGTGGAATAATTCAGCTCACGGTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004754:ENSBTAT00000006240:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.106 A=NA C2=0.212
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(66.3=95.5)
A:
NA
C2:
PF0767911=I-set=PD(31.6=90.9)
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:
ATGATTACATCCTACCCAAACACCA
R:
CTTGCACCGTGAGCTGAATTA
Band lengths:
286-2056
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development