BtaINT0123574 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023867 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:HGNC:21461]
Coordinates
chr11:94035301-94036780:-
Coord C1 exon
chr11:94036662-94036780
Coord A exon
chr11:94035414-94036661
Coord C2 exon
chr11:94035301-94035413
Length
1248 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TACTGATTTTCTTTTTGTAGCCT
3' ss Score
7.08
Exon sequences
Seq C1 exon
ATGCTGTTTCACCAACTTGGGAGCAGCTAGAAAATGCAATGGTAGCTGTTAAAACAGTGGTTCATGGCCTAGTAGACTTCATACAAAATTATAGTAGAAAAGGCCATGAGACACCTCAG
Seq A exon
GTAAGTAAAGTTATTTCTCTTCTGACTGCTCTTATTTCTAATGAAGCATGCTGAACATCTTAACAGGCTGTTTGGTTAATGGACTCCTTATTTGACAGCCCTGTCACATAAGTTTTTATTCTCTGTTCTTTTGAGAGAAACCTGAGTTTTAGTGTACCTGATAGTGTACCTGATTCATAGTACAGCAATAGTTTGGGGAGTGTCTTGAATATGAGTTCACTGCAAGTTTTTTTGACTGGCTGTAGATCTGATTCCATCCAAATATTTTGCCTGATTTTTTCTTAATTTGGGGAAATTGTCACTTTTTTCTCATTTGTTGCCATTCCAGTGAGTTCATATTTGTAAATGTGTGGAAATAAAGTATTTTCAATGTACTTTTGAAGGAGTTATTTAAGGTAAAACCATTTATTCTAATAATAACATCCATTTATTAAGTTATTATGAGCCAGTCTCAATATTTTACATAGATTATTTCTAATCCTCCCAGCCACCTGCAAGGCAGTTGCTGTCTCCAAGTTGAAGTTGAAAGAGGTTAAATAACATATCTAAGATCACGGTGGCAGTAAGTGACAGAACTGGGATCAAGTCTACTCCAAAGTGATCTTTCCACTCTTCTGTCCTTATTCTATTAGAAGACATTATAATGTTCAAAAATTAGCTAAAAGATGAATGTTTCATCTTAAGGTCACAGAAATAATGATGTCTTAGAGTTTGATGCAAATTATAGCAGTCATGATGTTTTTATATTTTGCCTCATTATTTGTATAAACTTAGCACCGACCCTTGGAAGAAAGTTATACTCTGAAGTTGACAAGTAAAATTAGTGTTTCTTAAATTTTAACTTCTAGAGTAAGTTGTATTCTTCCTTTTCCTGAGAACGTTTAAGTAGACAAAGCTTACAGCTTTTTAAATGCTTTTTGACATTGTTTGCTTGATTTGATATCATAATTTTGAGACATCAATGAATTTTGATGAAAAAATCTTTTATTTTTGTGGACATTTTGTTGACAGATAAGTAATGCAGCTTTGAACTAGTTCCTGATGATCCTCAGAAGGAGTATCTAAAATGTCAACTCATGATTATGCCATGTAACTCATAACAGGAAACAGGGCAGTGGTAGTTACGTCAGCACAAGAGTTGTCTAATGTGAAAAGGAATTAAAGGTGTCCTCATAGAACTCTGATGTCACAAGGAGTGAGTGAGAACTGAAATCTTCATTTATCCACATACTGATTTTCTTTTTGTAG
Seq C2 exon
CCTCAGCCAAACAGCAAATACAAGACCAGCATGTGTCGAGATTTGCGACAGCAAGGAGGGTGTCCACGAGGAACAAATTGTACTTTTGCCCATTCTCAGGAAGAGCTTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023867:ENSBTAT00000032789:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.350 A=NA C2=0.737
Domain overlap (PFAM):
C1:
PF0028516=Citrate_synt=FE(25.5=100)
A:
NA
C2:
PF0028516=Citrate_synt=PD(18.3=73.7),PF0064219=zf-CCCH=WD(100=71.1)
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:
TGCTGTTTCACCAACTTGGGA
R:
TTTCAAGCTCTTCCTGAGAATGGG
Band lengths:
230-1478
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development