BtaINT0123563 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023867 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:HGNC:21461]
Coordinates
chr11:94012814-94013526:-
Coord C1 exon
chr11:94013380-94013526
Coord A exon
chr11:94013028-94013379
Coord C2 exon
chr11:94012814-94013027
Length
352 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGA
5' ss Score
6.56
3' ss Seq
ATTTTCTTCTGTTTATACAGGAC
3' ss Score
9.61
Exon sequences
Seq C1 exon
TTCTCTGAAAATGTGAGTGGCACAAAATTTGAAGATGATCATCTTTCCCATTATTCTCCCTGGTCTTGTGGCACCATCGGTTCTTGTATAAATGCCATTGATTCAGAGCCCAGAGATGTGATTGCTAATTCAAATGCGGTATTAATG
Seq A exon
GTATGATTTGGGGGGCAAGGGTTATGCATGTTGATTCAAATTTTAGAATGATTGAAAGCTTTCGTCTTCATTTTGTTGCTATATACAGTAACTCATCTGTAAGCAGCAGATATATTTAGGTAAGTCTGAAATAAATTGCAGCCAGTGTTTATTTTATTTTATTTTATTTTTTTCAGTGTTTAAATTATTTGAACATAGTGTTTTAAAAATAGATGTTGGGTTATGACTGAGATATACAGTTAATATTAAATTTACCAGAGAACCTAATTTCATGTTTTTTTTGAAAGCTTTTACTTGTATTATTAGCTGAAATAATTGCCCACGATCTATTTATTTTCTTCTGTTTATACAG
Seq C2 exon
GACCTGGACAGTGGGGATGTTAAGAGAAGAGTGCATTTATTTGAAACTCAGAGAAGGACAAAAGAAGAAGATCCAATAATTCCTTTTAGTGATGGACCCATCATCTCAAAATGGGGTGCGATTTCTAGATCTTCCCGTACTGGTTACCATACCACGGACCCTGTCCAGGCCACTGCTTCCCAAGGAAGTGCAACCAAGCCCATCAGTGTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023867:ENSBTAT00000032789:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.389
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF080437=Xin=WD(100=19.4)
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:
TCTCTGAAAATGTGAGTGGCA
R:
TACACTGATGGGCTTGGTTGC
Band lengths:
356-708
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development