BtaINT0052815 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004754 | DSCAM
Description
Down syndrome cell adhesion molecule [Source:HGNC Symbol;Acc:HGNC:3039]
Coordinates
chr1:141814625-141815602:-
Coord C1 exon
chr1:141815506-141815602
Coord A exon
chr1:141814763-141815505
Coord C2 exon
chr1:141814625-141814762
Length
743 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
CTAACCCAGGTTTTCTGTTGACC
3' ss Score
-6.11
Exon sequences
Seq C1 exon
ATTTTGCCAACGGTAAGAGAAGATTCTGGCTTCTTCTCCTGTCACGCTATCAATTCATATGGGGAGGACCGTGGAATAATTCAGCTCACGGTGCAAG
Seq A exon
GTAGGACGGACAGAACCTAGGGGGAGAAACTCGGCGGTGTCAGGACAGTAAGTGTGTGCCCAGGCTCTGGTGTCCGAGTGGCCTCAGCTTGACACATCACACTTCCAAGTCCTAAGAAGATGTTGAATCTGAACAAAGTTGGTGCTAAAGCTTCATTTTACAGATCTCACAATTATACCAAGGTGCAGCCCCCACACAGAGGGAGCAAAGTCCATAAAGGAACTGGGTCAGCTGACTGGGCAGCCCGACGTTGTGCCTTTCTTGTTCAAATTTAGGAATCCTTACTAGATGTTCTGCCCCTGGAGGAGGGAAATGGCAACTCACTCCAGTATTCTTGCCTGGGAAATCCAATGGACAGAGGAGCCTGGTGGGCTACAGTCCATGGGGTCGCAAAGAGTCAGACACGACTTAGTGGCTAAACAACAACTAGATGATCTAAATGAAAGTTTCATATTCGGGGCCAAAATAGTTTCTGATTAATAGATCCCGAGCCAGACCAGAAGAGTGACATGTAAATCCTCAGGTTTGGTCCAGCTTTATAAGTGCTATGACAATTGGCAAATTTGGAAAAATAAAATTGTTCCATCCTAAAATGCGATTAGGAAAAAAATACTTCCAGGTTAAAAAACACAAATAAATAAGTCTGCCATGTTGAATGCTGACAAAGTTTTTGTGAGTCACTCGGGATTTTCACTAGCATCTTATGCCTGAACGATGTTCAAACTAACCCAGGTTTTCTGTTG
Seq C2 exon
ACCACACAGAGCCCCCAGATCCTCCTGAAATTGAGATCAAGGATGTGAAGGCACGTACCATCACCCTCAGGTGGACCATGGGCTTTGACGGGAACAGCCCCATCACGGGCTATGACATTGAATGCAAAAATAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004754:ENSBTAT00000006240:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.574
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(31.6=90.9)
A:
NA
C2:
PF0004116=fn3=PU(44.1=87.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTTGCCAACGGTAAGAGAAGA
R:
TTATTTTTGCATTCAATGTCATAGCC
Band lengths:
230-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development