RnoINT0125212 @ rn6
Intron Retention
Gene
ENSRNOG00000004673 | Rbm43
Description
RNA binding motif protein 43 [Source:RGD Symbol;Acc:1306676]
Coordinates
chr3:37437328-37440664:-
Coord C1 exon
chr3:37440475-37440664
Coord A exon
chr3:37437408-37440474
Coord C2 exon
chr3:37437328-37437407
Length
3067 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
TGATGCTAATGTTTCCATAGTTG
3' ss Score
6.22
Exon sequences
Seq C1 exon
GCATCAGCGTTGACGGTCAAAGATCCCACAGTTTCTGAGAGAACAGTTGTAGTTTCTGGGCTTCCAGTCGGCCTCTCAAAAGACCAGTTAGTGAAGCGCTACTTCCGGGATGAGGGCGGACATGTGGAAAAGGTGATATATCCACCAAGATCCAAAGGAGTTGCGTATATCATCTTCAAGGAAAAGAAAG
Seq A exon
GTATTTCTTAACCAAGCACATCTGAGAAGTGCTTTCTCAGTGAAATTAAAATTTCATATTGATAAGATCGTCGATGGGATTGGCAGCGTTTCAAGTAGAATTAAAAATTACTCTATTCTGAAAACCAGTCGGTTTTACGTTTACAAAAATATATGAAAATAGCTCATGAAAATGTCAGTGAGTGAAAAAGACTTGAAGACTTTAAAAAATATTTTGCTTCTTGGGAGGCAGATATAGAACATGTGTAAAATAAAGTTAAATTACATATAATCTCCTAGATGGGACAATTACTTTGGGAGTTTCTGGTGGCAACAACAATATAATCACACTCTGTGCTTCTAATCCCTCAAACTATCAAGTGGAAAATCTTCTCCTCCCCCTCTCCCTCCCCTCCTCCTCTTCTTGTTCTTTTAAAAAAGATTTAATATATATATATATATACATATATACATATACATACATACATACATACATACATACATATATATATATATATATATATATATATATATATATATATATATACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATTGGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGTTGGGAATTGAACTCAGGACCTCTAGAGGAGCAGTCAGTGTTCTTAACCACTGAGCCATCTCTCCAGCACATCAAGTGAAAATTCTAATAAAGAATTTGCTTTGCCACTGGTAACATTGAACTGAGGACTATGGCCTGCACCTGAAATAGGACCGAGCCATTCTGCCTCCCACCTCAGCTTGAAACAGCCACCTGGTTGGCTGCAGATTGTCTTTGCTACGCCAGCCTGGAAGAGGGACAGTTCTTTTTTAGGCTTAGGAATACTAGAGGAATAGGTGCCAGAGAACATTCTCCGGGCTCTACCCCATCAGGAGTGAAAGTTCCATGCAGGTGTAATAGCGCGCGCACACACACACACACACACACACACACACACACACACACACACACACACACAGGCTCTGTTTGAGGGGTGTTCAGGTATGTGGTTGTGGCGAGGGCTTGCCATATCTTTAAAAATTTGGCAGTAGTGGTGTAAGATGATATTTATGGAGCAAATATTGCTAAATACTATTCTGGATGATGTTGAGAACACAACCATGCATGGAATAGGCAGTCTTTTTAGTTTTCATGAAGTGTATGTACATCAGTGAGGGTGGGTGTCTATTAGGGCAACGGATGTACAATATGTTTGTGCTTTATTTATAACTGTACATTTATGTTTACATCTATTTATATGTTAACTTACAAACGTTATGAAAAAGTGTGAGGAATAGTAAAGAGATAAAAGTGACTGGGTGGTATTGTTTTAGGTAGACTGGGTTGGGAAATTTCTTTTGCTCTTCTAACACTTTATTTGAAAAAAGTTCTCTCTGTTATTTTTATTTTATGGTGCGTGTATGTGTATGCTTGTGTGCATGAGTGTCTGAATGTCATGTGTCTAGAGGTGCTTGAGAAGCCCAGAAGAGGGCGTTGGATCCCTGAAGCTGGGTTACACACAGGAGATTGTGAGTCACCGGATGTGGGTGCAGAGAATGAGACTGAGGTGCTCTAGGAGAGCAGCAAGTGTTCTTTCCTGGTACATCATCTCTCCAGCCCTCTTTCTCATTTATTTTTTGAGATGGAATTTTATCATGTTGCCCAAGATGCCCAGGCTGGCCTTGAACTAAGGGCCTTCAGCTTTAGTTTCCTGACAGCTGGGATTACAAATTTACACTACCAGATCTGGTTGGAAATCAATGTGGTCAGTGTCGGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTCTCTCTCTGTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGGGGATTACATCCAAGGTTTCATGTACACTAGCCATATTGGGGATAACATACCCAATACCCAAGGTTTTATCTATGCAAAACATGTGCTGTACCAACTAGGTGTGTTCCCAGATCTGAAATACTCTGTTTCTGTAACAGTTGAGCGGAGACCAGAATGAAGCAAAAGGGGGTGGGGTTAAGGGGATTCATAAGGATAAAGGGGAAGAACATTCTAGGATAAATGAAGGACTGGTAAAAATTGTTGTGGTGAGGAGTGCGGTGAGGAGGGATGGGGAGAAGTATGTTGAGTGTTTGCAGAAATAGGAAGGCAGAGATGGAATGCGTGTGAACAAAGTAATAGGTATGAGGACCTTGAGAGCTGGGACCCCTGTGTGCTGAGCAGCCTGTGGCCCCGGGGACGTTTCTGGGTTGCTTGTGGTGAGGTGGGAGCTGTTGGAGGTTCTGAGTAAGGGACTGAGGAGTGGAGTTGCTGTTCTGAAACAATGTTGCAGTGTGGAGAATACGATCTGTCAGTGGCTGCCGCTGTAGAGAGGCTGGAGCAGAGTCCGTGGGTACTTAGGACACCTCAGTTTTGGAGACCTGGAAGACGGTATTTGAAGATGCTCAGGGGAACGCTGACGAAGAAGTGAGCTTTCCTCGATGTGACACCTGTTAGGACAATGAAGTAGGAGCAGAAGTTTGGAAGTGATCACGTAGATATGTCCAAAGCCATAGAGGTTGAGATTAGCCATGGGTGGTTATAGTGATCAGAGAGGCCCCAGGTCTGGATTTGTCAGTGTCGAGAGCAAGGCAGGGATGGAAATTAGCAGAGAGTTAGACAAAAAAACTTCAGCTGTGTGGAGTTTCCGGAAGGCGGTAATCCTCTGATGGGTGGCATGGAGGATTGACCTTAGGCTCTTGCTTTTTACTCCTGTATGGATTTGTGTGTTTAAAAATAGAATTAGTATCTTATTAACACCTTTATGGTGAATTTTAGTGTGTTAAAGCTCGAAGGAAAGGCTATTTGAATGTCAGGTGTAGGAAAAAAATGTAAAAAACTTACTTTGCAAACAATAGAACTGAAGGTCTCCATTTGTTAATTAAGGTACTTGTTGGTGTGTGTTGTGTCATGGCATAAACACTGTTGATGCTAATGTTTCCATAG
Seq C2 exon
TTGCACAGACCATCATCAGACAAAAGAAACACCCTCTAGGCTCAGAGCCTCTGCTCACAGTCTCTCACTTCAGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004673:ENSRNOT00000006172:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(71.6=75.0)
A:
NA
C2:
PF0007617=RRM_1=PD(26.9=66.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]