BtaINT0045102 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002411 | CTNND1
Description
catenin (cadherin-associated protein), delta 1 [Source:HGNC Symbol;Acc:HGNC:2515]
Coordinates
chr15:82308357-82310607:+
Coord C1 exon
chr15:82308357-82308623
Coord A exon
chr15:82308624-82310535
Coord C2 exon
chr15:82310536-82310607
Length
1912 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TCTTGTGGGCTCTGTTTCAGAAC
3' ss Score
8.43
Exon sequences
Seq C1 exon
TGTGCAGTGAGGGGCCTCCTCCCTCCCCCCCTCCCTCAGTGGGCCATCTTCTCTTGCCCTGCCCTCACCTCCATGGACGACTCGGAGGTGGAGTCGCCCGCCAGCATCCTGGCCTCCGTGAAGGAGCAGGAGGCGCAATTTGAGAAGCTGACCCGGGCGCTGGAGGAGGAGCGGCGCCACGTCTCGGCGCAGCTGGAGCGCGTCCGCGTCTCCCCGCAGGACGCCAGCCCGCTCCTGGCCAACGGCACGCTCACCCGCCGGCACCAG
Seq A exon
GTAACCCTCCGTCCGCCAGGCCTGCCCGCAGACACGGACCCCTCGGGGAGGCTGCTCTCCGCACGGCGGGCATCCCGTGCCCCTGCCTAGTGATCACCTTCGCAGGGTGCTCGGTACTGATTGAGACAGGACATTGCTGCTCTGCCGAGTTACGTGGACATCTCTCTCGAAGCATCCATCTGACTTCCTGTCGGCTGCAGTGGGGTTTCTGGGTCGGGATGCCGTTCTGGTAGTGGCAGATCATATAATTTGAAGCTGTGCTCAAGTTAACTTCTTTTTTTCCCCCCTGGTTTCCCTCTTCCTCCATATCAAAAATTAAGGATATTAAATGCCTGCTTCGTGGTTGGGGAAGTTGGACATCTTGCATTCTCATTCTCCCTCACAGAGCAGTTTGCTCAGAGGCGTGGCAGTGTTGGTAAATTGTGTATTCCCGCTCCACACTTTTTTTGTTGGCTGTTCAAGTCATTTTTTGGAGAAGGGGGTCATTGTTAATTCTTTTGGTTAGAGTTGGCGAGGGAGCATCATGCTGCTATTTAAGCCAGATGACCGCAGGAGCCAGTGGTCTCTGGGTTGGCTGACTCGGATGTGACTCTGAAGTGAGTTGGTGTTCGAAACGAGAAGTATCTTGTGTTTCCTATGGTTTCTGTAGTCTGACTTTGCTGTGATGTAATCTGTCTGAGGTTTTGTCTGTGTGTGTGCGCGTGTGTGCGTGTGTATGTGTGTGTGTAATAGGCATTGCCTGATAGAGTTCATCTTAGGAGATCCTGATGGGAATCAAGAGCAACGCTCATGCTCACGATTGCTTATTAATGTTTGAAATGGAGAAGGTCCCTCAGGCTACGGAGCTTGTTGAGTGAGAGGATGTAATTTCAATTGGGGACGATCAGGAATTTGGAAGCCATGTGTTTGCAGGGCTTCTAGGATTTTTACAGGAACAAGAATAGAGGCTGAGGGTTGGAGGGGTATATATTGCAAAGGAGAGCAGGAGCGCTCAGCCTTGGAGGTGGTGGGGAATTCCAGGATTTAGTACATGGAGTCTCTCTCTTTTATTTTTAACTTCTGCTCAGCAGTGAAACCACACCCTTCCTTCTTCCTGAAAATAATGTTTAACTTCCTTTCCCTACAGCATTACATGACCTACGTAATGCGAGTAGGGTAGGGGAAGAGTCTCTCAAGGTGGCTGATCTCACTGTAGGCTTTGTGAAGGGGAGTAGTCAAATGTGTTTTTACATAGTATACGGTCGTTAGATTATTTCCTGCTGCTTCAGATGGAGCAACTTAAGAATGGCATTTTTGAATGTGTTCTGTGGATCTTATAATTGGTAATGAAGATACTGAGACATTTGTTTGCTTGAAGGGGGCTGAGATGCTTATTTTCTTCCTGCTTGAAAAGAGAAACTCGTACCTCTTGCTTCTTTCTGTAGAAAGCCGCCTGGTGTGGGCGTTTCCCATGGTTGTAGAGCATGAAGATGCATGAAACAGTAAAGGCTTTTGGAAACCCCCCACCCTAGCTTTTCCAACTTTCCTATGTTCTTATGGCTTTCCAAAAAGATTTCACAGGGAACTTACCTTATTCAGAAAAGAGTTTTGAGTGCCTAGTATGTGCAGGCACTGTTGAGGGTGCTAGGGAGGCGCTGAACAAAACTGACCAACGTGCACAAACACCTCTGCCTCAGAGCCCTCACCATCGTAAGTTCCAGAGGCCCAGGCCACCTGAGCTCCAGGCCCAGTTGCGCGTCTGAGGTGCTGAGTCTAAGGCACGATGTGGTTCTTTTATCTGTACTGACAGACGGACTCTGGGCCACAAATGCCTTCTTGAAAGCCCTTTTCCTGTTTGGAAAAAGGTCGTTTGTGTTTGATGGAGCAGAAGAAGGCCACAAAGTGAATTGTCTTCTTGTGGGCTCTGTTTCAG
Seq C2 exon
AACGGCCGCTTTGTGGGCGATGCTGACCTTGAGCGACAGAAATTTTCAGATCTAAGCCTCAACGGACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002411:ENSBTAT00000043778:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.923 A=NA C2=0.833
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGCAGTGAGGGGCCTC
R:
GGGGTCCGTTGAGGCTTAGAT
Band lengths:
337-2249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development