BtaINT0123363 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016217 | RBM43
Description
Bos taurus RNA binding motif protein 43 (RBM43), mRNA. [Source:RefSeq mRNA;Acc:NM_001099168]
Coordinates
chr2:44969979-44973211:+
Coord C1 exon
chr2:44969979-44970067
Coord A exon
chr2:44970068-44970860
Coord C2 exon
chr2:44970861-44973211
Length
793 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
ACTTCTCTGTTTAATTTTAGATC
3' ss Score
10.62
Exon sequences
Seq C1 exon
TTGCAGAGAATGTCGTCAGAAAAAAGAAACACTCTCTAGCAGGCATGGCTGGATCTGCTCAACTCATAGTCTCCCACTTCAGTGAAAAG
Seq A exon
GTAGGTGTGATGCTGAAGCCATGTTGATTGTCTAGATCCCATGTTTTCTGCCAGGTGTCTCCTACACAGGAGGCACAAAGCACCCTCACCCCATGACTTCTAGAAAAGAAAGTGCAAGCTCCTTAACCTGGGTCAGTGTTAAAGGCCTGTGTCTTGAAAGTTTTTTGGTTATTGCTTGTTCTGTTTTCCTGTTTTTCTATGATGCTCTTGATACTTTTAAAGTGACAATGAGCTCTTATACTGTCATGGATGATGTCTGGCATCTATCTGAAGACTTATTTTGTGGGGTAAAAAACCAATTTGGATGAACATTAAAAAGGAGCTTTGAAGACACGGGTAAGGAGGAAGTAAGAGGAAAAAGTAAAATTCAAAGCATTGATTTAAAACAATTCTGTAACAAAGGTAGGGTTCTCTGCAGCCATCCAATGACCTTCTCGTGAGGAGGGAGGGCTCTCTCCAGGGACCCCTATCCACAGAGCACCACTGGAACGGTTTATCTATGCATTCTGCTTAAAACTTTGATTCAAAAAACATTCTGCCTCTAAATAATATTTAACCCACTCTATTTGGGGGAATCCAGTGAGGAACTGTGAACCCCAAATGGAACACTGTGGCCTTGATAGGTTGTGGGGCCCCTGTAATGGGCAGTTATGGGGCAAGAAGCAAAACTGTGTGAGGCTTTGGAGGCCTGGTTAGGGCTGCTGCTGGGCAGACAGAAAGTGGCAAAACAAGATTGGATTTATGCAGTCTTTCCCCTAGGTGGTGCTGTTTTAACTTCTCTGTTTAATTTTAG
Seq C2 exon
ATCTTCAGCTCTGTAAAGGCTGTCCTTGATCTTTCTGTTTTTCGGAGTCAAATCCGTCTAGAAAGTCTGGTAATGGACCTGAAAAGGGAAATCCCAACGTTATGCTTCAGTCCTTTGGAAGCCAACGGAAGAATCTCCGTTCAAGGAACATTTCTGGCTATCGAGAAGCTCAAAGAATCTTTGCTATTAAAAGCAAGTTTTCTTTTAGAAAACAGTAGGAATAGACAGAGCCCCAGGGGAAGTACACGGAGAAGCAGTCACTCTTTAAAGCCAGCCAGGTCGTTGACACCCGAGACTACGAAAAGAGGAGAAAGTCTTGTTCTTGACACAGATACTTTCCTTTACCTGAAGAAGAGGACAAAATTTTATGAAAGCACACTGAGAAGATTTCATGTTCTATGTCAAGAGACAGTGGATGGTGAAATTACCACACTTTGTATAAAGAATGCTCAAGGTGGTTCTCAGTCAAACAATGAAAAAAAGGTAAAAGAGTCCATTGAGAAATATTCACATATTCTTCACTTTGAGCTTAGAAAGGAGACATTTATTTTGGAAGGAAAGGAAGATAGAGAGAAAGAAAATATTAAGTTGGCATGTGAGCGGCTAAGTTTGAGTTACCTTCAGGTTCTGGTTAATTTCTATAAGACACACATCGATGTTATAGGATCTCCTCCTGACACATACTTGTTTAAAAAAGAGGTCATGGAATTAATAAGACAAAAAGTTAGGTAATAAAATCCTCAGCAGTAGTGACAAGAAGGGCTGATTGATTCCTTCCCTTACTGAGCAGTGGTGATGTCATGCGTGATGCCAGCTTTATACACATTATCTCATTTAATTTTTTTTTTTTTTTTTGGCTGTATCACACAGCTTATGGGATCTTAGTTCCCCAACCAGGGATCAAACCTGGGCCCCCTGCAGTGGAAGTGCCGAGTCCTAACCACTGGACTGCCAGGGAACTCCCTATGTCATTTAATTCTTGTGACCATCTTTCATCATAGGCATTGCCATTCTCATGCTACAGGAGAAGAGACTAGGATTTGAGAAGGCAGAAACCCTTGTCTGAAGTTATGTAGCTGTCCATCAGTAAGAGTTAAACCCAAAGATAATATCTAAGGTATAAAACTTAAAAAACTCACTAAACTTTGAGGAAACCTCACTTTTTCTGCAATCCCAAATTCTTAGGAAAAAAATAGCCTTCAGTGAACTCAAACTGGGGCTCTGTGACAACCTCGAGAGGTGGGAGGTGGGAGGGAGGTTTCAGAGGGAGGGGGCATGTATATACCCATGGCTGATTCATGTTGATGTATGGCAGAAACCAACACAATATCGTAAAGCAATTATCCTTCAATTAAAAATAAATAAATTTTAAAAAGAGCCTTCATTCTAACATATAGGAAGTTCGAATGATTATTATTATGCCATTGACAATATTTATACCTTTATAAAGTTACATAAGCTTAACATTTATAAAGTTTATGTTTACTACTAACAGAATTAAAATGTTAGCAAAACTTGCCTGAGAAGCTACTTAGATGGTGAGTATTTCTGATGCAGGTAGTCACTACTTGACTAAATCCCATATTGGTATAAGGCTACTGGACATACAGGACATTTTTCCTGCCACTTACTTAGCCTAACTGCTTATATGAAATGTTGATTCTCTTGTTGAAATTATGTAGTGTCTATTTTATAGTTGTAAAAGTAATAACATTTCAGTAATAGGATCGTGGTGATGGGAATAAGAGCATACACTTACTTGGTAGGCATAAGTTTAAGTGCATTGCCTATCTTTACTCATTCAGTCCTGACAGGAACCCTGTGAGGTAGGCGCTGTCTTTATCTTCCTTTCTCAGATGAGGAAACTGGTGCCCAGTGACGTAATGTAACTTGCCCATGATCTTGGTTAGTGAACTGTTCTTCTCCCTTTCATAGTTTTCTGAATGCTACTTAAACAATTGAGAAATGTTTCCTTAAAGATGACAGAAGGATTTGAAAATTTTTTTACTGAAGAAGGGAAGTAAAACTTGTAAGTGGGTTGTCTGTGACTGTCCTGCATTTAATTTAGCATTAAGCCAGTTTTCAGTATCTGGGGAACTGCAGAGACCCCCCCAGGATTATAAAACACACATCTTGCTCATCACAATGTAAACAAACAGATTATGATGATTTGAACTGTAGCAGTAGAAAAGCTTAAGACAAATCTATGTGCTTTCCTTTTTCTTAGCTACCTAAATCCCAACTATGTAAATTATCTCCATTTCTTTAAATGTCTTATTTCATTTCTGTACGGCTAAACTTTTTGTCATGGGAAACTTCTGTTTATATTAAGTACCCAATAAAGTATCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016217:ENSBTAT00000021579:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.136
Domain overlap (PFAM):
C1:
PF142591=RRM_6=PD(29.6=53.3)
A:
NA
C2:
PF094195=PGP_phosphatase=WD(100=47.5)
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:
TGGCTGGATCTGCTCAACTCA
R:
TAGTCTCGGGTGTCAACGACC
Band lengths:
342-1135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]