BtaINT0052824 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004754 | DSCAM
Description
Down syndrome cell adhesion molecule [Source:HGNC Symbol;Acc:HGNC:3039]
Coordinates
chr1:141724925-141727058:-
Coord C1 exon
chr1:141726941-141727058
Coord A exon
chr1:141725089-141726940
Coord C2 exon
chr1:141724925-141725088
Length
1852 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TTTTTCTTCCTGTGAGGTAGTAA
3' ss Score
-0.32
Exon sequences
Seq C1 exon
CTCCCGCACGAATCCTGACCTTCAGTGGCACGGTGACTACTCCCTGGATGAAAGACATTGCCTTGCCTTGTAAAGCTGTTGGGGACCCCTCTCCTGCCGTAAAGTGGATGAAAGACAG
Seq A exon
GTAACCAGTAACCCAATGTATGCCCTCAATACAGCACTAGGAGAGTGCTTCGGACACTGTTCTGGGTCTCGTGGTATAAAGTTGTAGATTTACACTCATGAAAGCTACAGGAAAACTACCTAGTCTTCTGCAATAGAGAGGAAGCTGGTTGAGGGTGATGGGGGAGGAATCTCAGCTTTAGTACTAAAAGGATCTGATCTATCATGTCAATTCTCTTAAAATTCTTAGCTTTAAGTTCATGACAATGCTTCCGAGGAAAATAGTTTAGCCAACTGAATAATTTCTGTGTAAGTTTTCTGTACTTTATCATGAAAATCCCCTATATATCTGAGATGAACATACCCAAGGAGACTTGAGACTTAGACTTATCTCTTCTCCTTCCAAGACAATGGGCCAACCAACCCTAATTGAAATGCTCTGAGAAATGGCTTTAAGAAATGGAATACATTGCTGTTACTGTTGTTCAGTTGCTAAGTCATGTCTGACTCTGCAACCTCACAGACTGCAGCATGCCACACTTTCCTGTCCTTCACTGTCTCCCAGAGTTTGCTCAAATTCATGTCCATTGAGTTGGTGATGCCATCCAACCATCCCATCCTCTGTTGTCCCTTTCTCCTCCCACCTTCAATCTTTCCCAGCATCAGGATCTTTTCAAATGAGTTGGTTCTTCATATCAGGTGGCCAAAGTACTGGAGTTTCAGCTTCAGCATCAGTCCTTCCAATGAATATTCAGGACTGATTTCCTTTAGGATTGACTGGTTTGATCTGCTTGCTGTCCAAGGGAGTCTCAAGGGTCTTCTCCAGCACCACAATTCAAAAACATCAATTCTTCAGCACTCATCCTTCTTTACAGTCCTTTTGCCTTCTTTATGGAATACATTAGGACTTTGCTAATGTAAAACCCAGTTTTCCACGCTCGGTAGAAATTATTGAAATAATAACAGCTGAGATGGAAGGGAGAAAGTGGATGAAATAGATTCCATTCATGTAAATTTTTAAAGTACTTTACTCAGAGGAAGAAATTAAGATATAAATAAAGGGCTGAGCATTCACTGATGAAGCTAGAGATTTGAGATTGAGAAGAGTCCCTATTTTCAAACAAAGGCACTTCAAAGACATAAACTATTGAAATGATAGTCTTGGTATGTGTGTGCTAAGTCACTGAGTCATGTCTGACTCTTTGCAGCCCCATGGACTACAACCTACCAGGCTCCTCAGTCCATGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATGCCCTCCTCAGTAACTACTTTCTCATCTCTTTTAATGTCAGTTAAGGGAATCAGTACGCTCCCAAGGTTAAGTGGCATCCACCAGATGTGGGGATGGCCCTAGATGACTGGACAATCCCTTCTCCCTGTGGCCAAGGCTAAGAAATCACCAAAGGAGCTCTCTTTATTACCAGGGTTGGCTCATCACCCTCTTGCCACACTGCAGTTCATTTCTGATGCCACAATCATTAACTGCAATTTTCCATGAATCTACAAGCCACCCCAAAACTTAATTGTCCCGATATGATCTGGTCAAAATGGTATATCTGCCCACAGAACCAATCTCGTTTGGTATATGATAAGCATTGACCTATGTCAGGAGCCAGAAGCCACACAGACCTCCACACAGACTTCACTTCAACACAGCATTTTGTACAAATAATCAAACTCAGCTGTGTGACTGTTTTCATCATATAATCATGGTTTAGTTCTTACTTAATATAATATTCCGAATGGGTTGTCTGCATCAGAGGGTGTTTATGCTTTTCCCCAACCTCAGCTAACTTAGATTGTAATTTCTTTAATCTGCGCCTTTTTCTTCCTGTGAGGTAG
Seq C2 exon
TAACGGGACGCCCAGCCTGGTGACGATTGATGGGCGGAGAAGCGTCTTCAGCAACGGCAGCTTTGTCATCCGCACTGTGAAGGCAGAGGACTCTGGCTATTACAGCTGCATCGCCAATAACAACTGGGGGTCGGATGAAATTATCTTAAATTTACAAGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004754:ENSBTAT00000006240:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(40.0=90.0)
A:
NA
C2:
PF0767911=I-set=PD(58.9=94.6)
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:
CTCCCGCACGAATCCTGAC
R:
AATTTAAGATAATTTCATCCGACCCC
Band lengths:
270-2122
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development