BtaINT0123362 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016217 | RBM43
Description
Bos taurus RNA binding motif protein 43 (RBM43), mRNA. [Source:RefSeq mRNA;Acc:NM_001099168]
Coordinates
chr2:44968717-44970067:+
Coord C1 exon
chr2:44968717-44968924
Coord A exon
chr2:44968925-44969978
Coord C2 exon
chr2:44969979-44970067
Length
1054 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
ATGGTCCCTCTTCCACTTAGTTG
3' ss Score
6.11
Exon sequences
Seq C1 exon
GCATCAGTTTTGAATGTTAAGGAATCCAACGCTTCTGAAAGAACAGTTGTAGTTGCTGATCTTCCAGTTGATCTTAATGACCAGTTAGTGACCACATTAGTGAAGATTCACTTTGAAGATACTGACAATGGGGGTGGAGTTGTTGAAGATGTGACGTATCCAACAAGAACTAAGGGAGTTGCATATGTAACATTCAAAGAAAAAACAG
Seq A exon
GTATTTCCAAATCAAATTTTTATAACCTTAGAAATACTTTCTGGAATGAAATTAAAAATTGAATTTCAGTAGAATAATTCATGAGATGGTTGGATAGCATCACCAACTTGATGGACATGAGTTTGAGCAAACTGAGATAGTGAAGGACAGGGAAGCCTGGTGTGCTGCAGTTCATGGAATCACAAAGAGAAGGACACAGCTTAGTGACTAAACAACAGCAGCAACAAAAACAACAACAAAATGATTTATGGGATTGGTAAAGTTTAAATTTAAAAAACAGTACTTCTATTCTTGAATATAAAAGTGGCACAGTAGTGCGTTAGGAAGAATATATGTGTAAGTGCTTTATGATAGAGTTGTCAGTAACCGAAAAAGTCTTAAAGACTTCTTGTTTTCTGTATTTTATATCCATTTATATCATGAGATAAAGGTGATACATTTTATCGTAGAAAACTTGTAAAATACAAAAAAAAGCCCCACAAAAGCTATCTGTAATCTCATAAACAAGCACTGCTTTATTAATGGGAAAGTTGGAATGGGGAAATGGGGCTTGGACCTGAGGTCACGTTGAGCCATTCTCTTCCTGGCCTACACCTGACATAGGTGAGAAAGTTGGGTTTGCGGAGCTGTTCACCTCTGTAGCCTCATGGATGGTGCATGCCAATGCCTTGAGAGAACGCGGAGGGAAGGAGAATTAGTGAAGGAGACTGAGCAGGTCAGCCAGTGACTCAGAGGAAAACCAGCCGGGATAGTGTGATATCCTGGATTCAGAAAGGTGAAGTCTCCTGATGACCATAATTAACAGAGTGGTGGGGGATATACTTTTAGGTGTTTGTTATATATGTAACATACATAACATGCATGTGTTTTATATATATATATGTATAAATTGTAATATGTTAAACTAGAAGGAAAAAGGATTTAAATGCTGAATTTAGAGGAAAAACAGAAAAAATCTTAGGTATTTTAAAAGAACTGAACATCTCTATTACTATTCATTAAAATAATTATTACTGTATCCACAAACCTTTCTGATGGTCCCTCTTCCACTTAG
Seq C2 exon
TTGCAGAGAATGTCGTCAGAAAAAAGAAACACTCTCTAGCAGGCATGGCTGGATCTGCTCAACTCATAGTCTCCCACTTCAGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016217:ENSBTAT00000021579:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF142591=RRM_6=PU(68.5=52.9)
A:
NA
C2:
PF142591=RRM_6=PD(29.6=53.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGTTTTGAATGTTAAGGAATCCA
R:
CTTTTCACTGAAGTGGGAGACT
Band lengths:
294-1348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]