RnoINT0125214 @ rn6
Intron Retention
Gene
ENSRNOG00000004673 | Rbm43
Description
RNA binding motif protein 43 [Source:RGD Symbol;Acc:1306676]
Coordinates
chr3:37434620-37436622:-
Coord C1 exon
chr3:37435778-37436622
Coord A exon
chr3:37435244-37435777
Coord C2 exon
chr3:37434620-37435243
Length
534 bp
Sequences
Splice sites
5' ss Seq
TGGATATGA
5' ss Score
-2.33
3' ss Seq
AATAAATCTTTGAAAAAAAAAAA
3' ss Score
-11.71
Exon sequences
Seq C1 exon
GTCTTCAACTATGTGATGGCCATTCTTGATTTGTCTGTTTTTCGGCCTCAGATTGTGCTAGAAAGCCTAGTAGTAGACCTGAAAAAGAAAATCCCAACTTTAAATTTTAGCCCATTGGGACGCAGTGGGAAAATCTCTGTGCAAGGTTCATTTCTGGCCATCCTGAAGCTCAAACAGGCTTTGATATCAAAAGCTATTTCCGCTTTAGAAAACAACAGGAAATACGCTGGTGAGAGGAGAAACTGGACTGGACAGAACCCTAGACGGGTCCTGCAGAAAAACGAGAACTCTGCACCGACTCTGGGGACCTCTGTACCTGAGCCTGCCGGCAGCCCGGAGACACTTGTGCTTGATACAGATGTTTTTCTTTACTTGAAACACAAGTGTCAGTTTTATGAACCAACGCTGAGCAAATACCATGTCCTGTGTCAGGAAAGGGTGGATGGTGACATCACTACCCTTTGTCTACAAGATGCCCGGGATGGGTCTTACCCTGGCAGCGTCAGACATGTGAAGGAGCTCATTGAGGAGTGGGCCCAGGAGTTCTACCTTGAGCTCAGAAAAGAGCTGCTGGTTTTGGAAGGAAGGAGAGAGAGCGAGAAAAGATTCATGAGGCAGGCTTTTGAACAACTGTGTTGCAGATATCCTAGAGTTTTGATGAATGTTCACAGAACACATATTGACCTTATAGGACCTCCTTCTGACACGTCCCTGTTTAAGACACAGCTCATGAAGTCTGCAGGGCAAAAGGTCACTTGAAGTCTCGGCCACAGTTATCATGGTCACTCCCCCCCCGCCCCTCCCCCACCCAGGGTGTAGGTGAAGATTTGGATATGAAGATATGG
Seq A exon
ATATGAAACTACTTATCCGGGCTGGAGAGATGGCTCAGCGGTTAAGAGCACCCGACTGCTCTTCCAGAGGTCATGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGAGATCTGATGCCCTCTTCTGGTGTATCTGAAGACAGCTACAGTGTACTTATATATAATAAATGAATAAATCTTTGAAAAAAAAAAAAGAAACTACTTATCCAAAGTTATCCAGTAGACAGTGAATGGGACTGGCATTGAATAAAAAGTAATGTCTAAATCCCTCCCCCACCCAGGGTGTAGGTGAAGATTTGGATATGAAGATATGGATATGAAACTACTTATCCGGGCTGGAGAGATGGCTCAGCGGTTAAGAGCACCCGACTGCTCTTCCAGAGGTCATGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGAGATCTGATGCCCTCTTCTGGTGTATCTGAAGACAGCTACAGTGTACTTATATATAATAAATGAATAAATCTTTGAAAAAAAA
Seq C2 exon
AAAAGAAACTACTTATCCAAAGTTATCCAGTAGACAGTGAATGGGACTGGCATTGAATAAAAAGTAATGTCTAAATCAAGCCTTGAAAAAAAGAACTCACTAAATGTTGACTGATTTCCCCTGCAAATCAAAATTATTAGGAGAAGAAGTCTTCCCTTGCATAGGTTTGCATGACTAGTGTGCTGTTGCTAAGCTCTCGGGGTTTGTATTCACCCCACATAGCATTAGAATGTTGGCCGAGCTCACTTGGGAAGTTGTGGTTCTGTCAGAATTGTGGGGGAATCTTGGGAGAAGTCTGTGTGAACGCTTTTGTGTGTGCTTCTTGCTTTCCGATAGTATGGCATCCAGATGAGCATTGTGAGTCGAAAACATTGTGAATCAGAAATGCCTTTAATTCAAGTAGTTTGCAGAACATGCTAGATTTGCCAAACTGCCCACAGTGAGGAGATGACTGCGTACCCGGGTTGCTGCGTTGACTGACAGATAGGCTCAGTGATGCTGCTCTGCACTGCTTGACAGCATTGGGTAGTGGATCAGCACTTGTTTGGAAGAGATTCAGTGTTCGAAGTACGATTTCTACTGACTCTTTATTCCTTTTGCACCGTAATAAAGGAAAACGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004673:ENSRNOT00000006172:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTTCTGACACGTCCCTGTT
R:
CGAGAGCTTAGCAACAGCACA
Band lengths:
349-883
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]