DreINT0125433 @ danRer10
Intron Retention
Gene
ENSDARG00000063731 | rbm45
Description
RNA binding motif protein 45 [Source:ZFIN;Acc:ZDB-GENE-070122-4]
Coordinates
chr9:1460764-1462789:-
Coord C1 exon
chr9:1462573-1462789
Coord A exon
chr9:1461043-1462572
Coord C2 exon
chr9:1460764-1461042
Length
1530 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TGATGTGTTTGTTCTTGCAGAGG
3' ss Score
10.13
Exon sequences
Seq C1 exon
TCGTTTCGGGTCCCTGATTGAGGTGTACTTGGTCCCAGGCCGGAATGTGGGGTATATAAAGTATGCCGACCGCAGAAGTGCACACGATGCCATAGATACCATGCACGGTAAAGTGGTTAACGGGGTCAAGATGAAGGTGATGCTGGCCGACCCACCCAAAGAAGAGTCACACAAGCGCCAGAGAACTTACTGACCTCTGACCTTATGACACACACAG
Seq A exon
GTAAGTGCACTCTGTAGGTAAGAACCTGTGAGGTTATTCAGAGATGCGTGAATCTGCATGCGCTTTAACTTCTACTGTTAAAGGTGCAGTGTGTAGGATTGAGCATCGCGGATGATCGAGCTTTTAGCTGTAAGCTGCTCAGATAATAATTATGTGTGGAATATTTGTATTATTTGCTACTTAAACAAAAAACACTGTATTTTTATAAGTCTGAATCTGCATCTCATTTCATAGGCTGCTACTGTTTTCCAGAGTTCAGGTTTTTGGCTGCGTCCGCATACATTGAAGCAGCATTCACGACTGAAGTTAAATATACCATTTTCCTCCAAGGCAACCTGAGGTGCTGAAATATAATTGGATTAACTGGCAGGGGGCTGGTTATAGAGGCCAAAACAAAGACGGACATTCTGACTCAGAACGCACATCCTCAAAGCAGAATATCTGACTTAAGCATTATTTTTCTGATAAACAAATATATTCACTTAGCATGTTTCTTAAATATCTGCAATCATATTATGGTATCTGTGTTTTTGAAATGGTCATCTTACACACAGCACCTTTAATACGAGAACAAACCAGGACAACCTGGACTTCAACCTGCTGACTTTAGACATCATGACAGAACTGACTGTTTAACCGGAGAAATAGACAGGTTTTCATTTCATATCATTTTTGGGGGGTGGGGGGGGTTTACTCATTTTCATGAATCATGTTTTTTTGTGTGTATATTGCATTTGTATGCAACCAACATACTCAAATAATTGCTTTACTTAAAAAGACAGTAAACCTGTTGCTTTTAAAACGATTAGTTGACTTTAATAAAGTGAGTAAACCTGTTGCTTTTAAAGCGATTAGTTGACTTTACTTAATAAAGTGAGTAAACCTGTTGCTTTTAAAGCGATTAGTTGACTTTACTTAATAAAGTGAGTAAACCTGTTGCTTTTAAAGCGATTAGTTGACTTTACTTAATAAAGTGAGTAAACCTGTTGCTTTTACAGCGATTAGTTGACTTTACTTAATAAAGTGAGGAAACCTGTTGCTTTTAAAGCGATTAGTTGACTTTACTTAATAAAGTGAGTAAACCTGTTGCTTTTAAAGCGATTAGTTGACTTAACTTAATAAAGTGAGGAAACCTGCTGTTTTTAAAGCGATTAGTTGACTTTACTTAATAAAGTGAGTAAACCTGTTGCTTTTAAAGCGATTAGTTGACTTAACTTAATAAAGTGAGGAAACCTGCTGTTTTTAAAGCGATTAGTTGACTTTAATGACTTCTTACAGTCTGGAGTTTCTCCTCATAATCATAACTATGGTCAATGTCCTACACTTTTGTTTTTTTAAATAAAATAAAAAAAATGTAAACTGCATTTAAGAAGGTAAGGACACAAACACTAAATAAAACAAAACAAGAACAAAAATCAACATTGCATGATTTTAACATGCAATTTTATACACACATATACATACAGTTTAAAAGAGTTGTGTGATGAACTGCTGGACATGTGTAACAGTCTGATGTGTTTGTTCTTGCAG
Seq C2 exon
AGGTTTAAGTGACATTGACGCATGACCTCGACATGACAGGACGAGTTTTTACGGTGACACGACGGACGCTGACTGCCGTATTGCCATTTCAGTTCTTTAATGAATAAGGAAAACTTTCTGCTTTCCTTTAGTTTTATGTTTACTGTTAGTCAACTACCAGTGTTGGAGACATTTTTACGGAGACTTCACCAAAACATATAGTGCTAAACCTGTATGCCTTTTCTTTCTTTCTTTCTTTCTTCTTTTAGTTTTTTGCCTCTTTCTTTAGTTGTTTTGTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063731:ENSDART00000093415:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(73.8=69.2)
A:
NA
C2:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCCGGAATGTGGGGTATAT
R:
TGTCTCCAACACTGGTAGTTGAC
Band lengths:
352-1882
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]