DreINT0125483 @ danRer10
Intron Retention
Gene
ENSDARG00000074023 | rbms1a
Description
RNA binding motif, single stranded interacting protein 1a [Source:ZFIN;Acc:ZDB-GENE-030131-4967]
Coordinates
chr11:10952990-10956296:+
Coord C1 exon
chr11:10952990-10953081
Coord A exon
chr11:10953082-10956138
Coord C2 exon
chr11:10956139-10956296
Length
3057 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTTATGTTTTCTGAATATAGCAA
3' ss Score
4.57
Exon sequences
Seq C1 exon
GATATGGGTTTGTGGATTTCGACAGTCCCGTGTCCGCACAAAAGGCCGTCGCAGCACTGAAGACCAACGGAGTTCAGGCTCAGATGGCCAAG
Seq A exon
GTGAGTCATCCATTTATAACACCACTTCCTTTTCCAAAGTAAATAGTTCATGACCCGTCTGTAAGAGCCATTCAGGAAGCGTTGATCTGTAACATTAAAATTTAAACCTTTTCATGTGCCATTTCTCCATCGTTTCCTGTTCTCCATCAACACACACATACATTTCCTGTGTATCTTTGTGCCTTGGAGAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGACAATCCTGCATTGACCTTCTCCCAGGTTCTGGGCGTTTCTGCCTGCATCTTCAATTTTTAATCTGCCCTCTTTTTTTCTCTTCCTTCCCACTGTCAGCATATTACTCTTCCACTTCCCCGTTACGCGTACATGAGTGTGTGTGTGTACTGTGTAAACATGTTTGACGCATGCATGTTGAGGAATGTTGACGTCTTATCCTGGACCGCCCTCGTTTCTGCTGAGGCATCTAGAATTGCAAGCTGAGATTCTGCCTTCAGCCAATCAAACGTCAGATTGAAATGCAGCTCGTAGTGTATCGTGTGTCCTTGTTAGCTGAGAGGCAAGATCAGAATTGTATTGTGCTCTCACAAAGCACTTATGCACCACATCGCAGCTTAAGACTCTGAATATAAACCGCCCGAAGGTCTCACCCTTGAGATGCTGGACACATGATTCACATAAATGAATGAGTGGATGGTGCTGCTTATTTAAGTAAGAAAATTCTGGTCTGCTTAATGTGTCTCTTAAGCTCAAGCGTAGTGATAAATGCTGGTTTCACAGCTTAAGCTTAATCGGGTGACCTGCTGCTCTATAAATTACACTGTAGGACGTGATGAGGATGAATAGATTATCGCAGTATCTCTTTGCGTAATCATAATTGTCCTTTGCATAGTCTTTTGCAAAATCGGTCATCCTTTAGTTGGGGTTGTTAAGCTTGCAGGCTAATAATTTTTTAAGAATGCTAGCAAGTAAACAAGTTGGAAGGTTTTATTTTACAATTTTAATTTTTACCATCTATATTCTATCCGAAGTTGATCATTCATCATAATTTTATTGTAAATAAAAGCAAAAAAAAAAAAAAGAAAAAAAAAAGGTTTTTGTTAGGGAGGTCTCGATCAGGTTTTTTTGCTCTCGAGTCAGAGTCATTTGATTTTGAGGATCTACTGATACGGAAACCCAATCCGATACTTCTATAATATAGTGTTTCCTCTAGGATTTTTTTCCAGCTGTGGCGGCAGGCCTTTTACACAGATCTACCAACTACCTATGGCGTTATTTCAATGACAAATGTCGTGAGTGCAGTATTACAAGTCGAGATCGCATTCATGTAATACGAGCATGTGAATCTCTTTGTAAATATACACTGCTCAAGTGCATTTTCTTGTGTGCTCTCCAAAAAAAAACTACTGAAGTGCGATTAAGTAAGTTTATATAATGAGCATGTCTCCAACATTTAATTATATTTGCTAGGAATATTTATGAATGTCTCCAAAAGACCTACAGAGCTGCATTAATGCATCCTGAAGTAAAGTGAAACGGCTATAAACTCCAGCATAATAAAGTCATTGGGCTCTATTTTGACGATCCATACACAAAGTGCAAAGCGCAGGGCGTAAATGCATTTAGGGCGTGTCAGAATCCACTTTTGCTAATATAAGGATGAAAAAATCTGCTTTGCACCGTGGCGCATGGTCTAAAAAGTTTGAGCTTATTTTCTTAATGAGTTATAGGTGTGTTTTGAGAATAAACCAATCAGAGTCTCATCTCCCATTCCCTTTAAGAGCCAGCTGCGTCACGCCATAAGCGCATTTGCTATTTGCATGACGACTTTGTAAATGGAAAAACTGAACGTTTCACTAGCAAGAAAACAGTTAAACAGAGCATCTGCAGCGCGAGAATGAGAGATAGGCCTCTCAAGTGCATTTTCATGTGCGCTCTCGAACAAAAACTACTGAAGTGCGATTTAGTGCGTTTATGTAACGAGCATGGGGTTGAGCCCTATGTGTGCACGTGCCTGGTTTAGAGAATAAAACTTGCTCCTGACCAGGTTAGGTTCACAGAGTAAGTTACCACAGTAAAAGTTATCTCTCTTTCAGGAACAGGCTTGACTTACCCTGCTTTCTCCAGTTTAACAAACCTGCCACTTTGAAATGGAAAACCCAGAGTTTCTCTCATTTCAGGGTTAAATACTTTTTCACATAGCCTCCTTTCTGAAACGGGCCCTTAAAGTTATCCATAATCTAGTGTGCTTTAAAATTTCGCAACTTTCATGATTCGCAATTAGAAGTCATAAACATCTAAAGCTTACAGTTTGTTGATCAAATGGATCAACAATTTTTTCAGCATACTTCAGTTTCTCATCAAATCTTCTAAACAATCAAATGCTCTCTAGTATCTGGCATGTCCCGCCCTCTTCAAGATGCTCCTCAGCCCGAAATCTCACACTTCCATACTATATAGTATGCTAAAACAGTATGCGAGCCGAGTAGTATGTCCAAATTAGGTCACGTGATCATGACAAAATGGCGGATGTAGTACGTCTAAGTTCCATTAATACTAATCACATTCATACTGTAGAACTTCCCTTTCTAATGGTCGAGTGGTTAATTTAAAATCAAATGCAGTACCTACTGAATAGTAGGCGATTTTGTATGCTTGTTTGTTTTTCATTTGATGAGTTTGAGCTCAACCACTCTCACTGGCAGAGGTGTGATTAAAACTAAACGCTATTGGCTGCCTATTTTAAATAGGAGGAGCTACTCTATGTCCCGACCCTGTCTTGATGTTACAATGAATTAAATTATGTCACACATCAAACAGAAATGCACATTTAAAAGCTTATTTCTTAACAGAAAAATATGGCAAATGTGTAATGCCAGTAAAGGCTTTCATGATATACAAGCAGCAGTATTTTAAGCTATCAGCCTAATCACACTAATCCTCGACCATTGACATGAAGTATATTTATGATGGTCTTTAAACTCAGAGGAGCTTATATATCAGCTGAATAAACAAATGAAGGACATTTAATAATGTGTAATTCTCTGCTATGTGTTTTATGTTTTCTGAATATAG
Seq C2 exon
CAACAGGAGCAGGACCCGACTAACCTGTACCTCTCCAACCTGCCCGTGTCCATGGATGAGCAGGAGCTTGAAAACCTCCTCAAACCCTTTGGACAGGTCGTGTCCACCCGAATTCTGCGCGACACTAATGGAATGAGCCGGGGGGTGGGCTTTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074023:ENSDART00000064860:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.245
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(38.8=83.9)
A:
NA
C2:
PF0007617=RRM_1=PU(64.7=83.0)
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:
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]