BtaINT0052774 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019876 | DSC1
Description
Bos taurus desmocollin 1 (DSC1), mRNA. [Source:RefSeq mRNA;Acc:NM_174044]
Coordinates
chr24:26318696-26320911:+
Coord C1 exon
chr24:26318696-26318741
Coord A exon
chr24:26318742-26318824
Coord C2 exon
chr24:26318825-26320911
Length
83 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TGTGCTCTTTCTCGACACAGAAG
3' ss Score
7.79
Exon sequences
Seq C1 exon
GAATCCATTAGAGGACACACTCTGGTTAAAAATTAAACAGTAAAAG
Seq A exon
GTAAATCAAAGCCATTATTTTTAAGCTAATACATTTAGGTGTTTTTTAAAAAAAATAATAAAATGTGCTCTTTCTCGACACAG
Seq C2 exon
AAGGTGTATCTGTGCGGACAAGACGAGGAACACAAGCTCTGCGAAGACTACGTTCGCTCCTATAGCTATGAAGGCAAAGGGTCTGTGGCCGGCTCAGTGGGCTGCTGCAGCGATCGGCAGGAAGAAGAGGGGCTTGACTTCCTAGATCATCTGGAACCCAAATTTAGGACGCTAGCGAAAACATGTGTAAAGAAATAAAATGTGCCTTTTAATAGCGTAACATCTACCAGCGCATATTGAATGTAAAACAATAGCAGCATCTGCTAAAGTATTTGTTTATGGAGGTAAACTTCCAGTTGTGTATAGATAAGGCTCCCTTAAATTCTCCTTGTCTGAGATAACTTTAGTCTTCTCTAGACATCAGTGCTTCCTTTGTTAATTTCCTTTTCTATGCACGTACATTTTCTTGCCCTTTCCAGGACGGCACCGTGTGCTTTCTCACACCTTCTGTTTGAAAACTTACGTTACTTGGTATGCTCTGGAAGAGTATGTGAGGGAGTTAGGGATTGTGGAGATTAAAGAAAAACACATTGTTATTTTAAATGAAAATGAAATATTTTCTTCAGAATCTTGGGGACAATTATGCTTTTAGAAGTATTGTCTTTGGTGCTACAGAATTGCTTCCTTTACCTGAATGGCTTTGTGCTGAAGAATTTCTTATGCATTCTCTGATGCAATCTTTGATTTGGTGAATAAGAGCTCATCTTTCATTGTGTTTTCACCCTGTGGAGGTGCTCCCAGCTTGATCCTGGGATCTCTGTTGATGTGGATGTGTTATCAGGTTCCTACAGGTTCTAGAATTGTTGGAAAGATGTGGACCAGAAGAGGCTCACAGAAATTTGAGTCATTGAGATTTTTAAAAAAAAAGCATTTCCATGAAAGAATTGCAGCCTTAATGCCCATGGGTTGACTGAAACATGCAAATCTGTTTTGTTGGCCCATCATGATGTATTATTACTTTTTAAAAATGTAAATACCTTGGCAAGGACATGTTCTCTCTAGTTTGACACCATCCCACCATCCTCAAGCATTTGAGTAACTAGACCAGTAGGCATTAGGCTTACAACCCTGATCGCCCTTTGAATGTGCTAAACACTGAATGACTATCCATACTGGAATGGATACTCAGGCTACATTGGTAATCACTTTCAGAAAATGTTAAATAAGAAAAAGTGTCTGGCATATATATGTTAAAAAACTGAAATGTGTTATTAACTCAATTCTTACCAAACATTTGTTGAGTGATGCTGGATAAAAGAATGAAAACATGAGTTAATGAGCTATTTTGAATACATAGCATTTTAATAAGATATTCTATTTTATTACTTTAGAAAAAACCCATATATTTAAATAATATTTTAATATTTTTTGTGCCAAATGCTATAGATTCATAAAACATTTGCAGTATATATCACAAGGACATTTTCATTCAGACAAAAAAACTTTTTTTCATCTTTTAGCTACTTAACCTTCAAAAAAAATGAGTGACTAATTTTCTTAAATTTTGTGAATTATTTTCCTTCTTAGTCACAGGATCTAAATAAAGATGTTTCTTGAAATGAAATTGAATAGTAGAGCAGAATAAATAAGTAGCTTTAGTAAATACAGTTTTTATTTTAAAAGGTGCCCTCTATGTATTATTTTTATGGGCATTGTCAGTAAAATAATTTTGGAGAGTAATGCAGCTTCTGAATATCTGTTATCTGATGTACATGTTATTCTGACAATGATGCTAGTTTTGAAATTTTATAATATTAAAATTTTGGAAATATATCATAATAATGTTCTAAGTTATATTTTTGAACATAGGTGCAGAATGTTTGCTGAGCAATTAAAAATAATTAGTTGAACATTAGCCTACATGTTTATGTCTTCGTATTTCTTAAATTTAAATGTGAAAAAGAAAATTTGTATCTGAACATAAGGTACAAATAAAGGCCAAAGGCTGATTTCTCAAACCAACAAGAGAAGATACTTTAAAACTATGACCAGAATTATTAGAAAGTGTAGGAAATGAATTTGTATTAAGGAATTTGACTATTTTAAGATGTTTCAAAATATCATTAAATTGTTAAATTGTATCTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019876:ENSBTAT00000026483:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0104912=Cadherin_C=PD(52.9=97.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATTAGAGGACACACTCTGGT
R:
AGTCAAGCCCCTCTTCTTCCT
Band lengths:
182-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]