GgaINT0041857 @ galGal3
Intron Retention
Gene
ENSGALG00000008914 | NRAP
Description
NA
Coordinates
chr6:28915490-28916188:-
Coord C1 exon
chr6:28915877-28916188
Coord A exon
chr6:28915643-28915876
Coord C2 exon
chr6:28915490-28915642
Length
234 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TATATGTTTCATTCTCTTAGGTA
3' ss Score
9.19
Exon sequences
Seq C1 exon
TACAAATACAGAGAAGCCTTCCTTCGAGACAGAGGCCAGAGGATTGGATTCTTCAGTGCAAATGATGATGCCCACACCAGACATGTCCTCAGAGTAGGGAAACTCCAGAGCGACAACCTGTACAGGAGCGGATACGCCCAAAACAGAGGACATTTTCAGAGTCACCTTAACCAGCCTGGGTTCCTCCATGCTAAGAGAAGCCAGCAGCTTGCCAGCAATGTTAACTACAAGCAGCCCTTGCACCAATACACTTGTGATCCTGAGCAGCTAAATGTGAAACATGCAAAGCAGGCCTATAAGCTGCAAAGCGAT
Seq A exon
GTAAGTACAGCTGAGAGGTACTGTCCTTCCCAGTGCTAAGAGCTGTCTGTGTGGCAGTGTCATCACAGACCTTATTTATCAACAAAATCATCCTTAAGAGATCTACAATCTGTTTGCAGAAAACACAATTTATTTGTTTACTACTGAGCCTGTTCCTCTTTCTATTCTCTCTCTCAAAAACACAGAACATGCGGTTAATAGTAACACGTGCTATTATATGTTTCATTCTCTTAG
Seq C2 exon
GTAAAATACAAGTCTGACCTGAACTGGCTCAGAGGCATTGGCTGGACTCCTCCAGGTTCTTACAAAGTGGAAAGGGCAAGAAGAGCTGCTGAGCTGGCGTACCTTCGGGAAATGGGGTTGCAGGCTGCTTCTGCTCAGTATGGACCTGAAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008914:ENSGALT00000014498:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.106 A=NA C2=0.146
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=10.6),PF0088013=Nebulin=WD(100=27.9),PF0088013=Nebulin=WD(100=20.2),PF0088013=Nebulin=PU(55.2=15.4)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=21.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGAGCGACAACCTGTACA
R:
AGCAGCTCTTCTTGCCCTTTC
Band lengths:
299-533
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]