GgaINT0126107 @ galGal4
Intron Retention
Gene
ENSGALG00000001169 | CRB2
Description
crumbs family member 2 [Source:HGNC Symbol;Acc:HGNC:18688]
Coordinates
chr17:9008862-9010540:+
Coord C1 exon
chr17:9008862-9009729
Coord A exon
chr17:9009730-9010423
Coord C2 exon
chr17:9010424-9010540
Length
694 bp
Sequences
Splice sites
5' ss Seq
CGAGTGGGT
5' ss Score
2.58
3' ss Seq
TGTTCTTCTGCTTTTCCCAGATG
3' ss Score
10.28
Exon sequences
Seq C1 exon
GTCTGGCTAACGCAACATTTAATAGTTCTGCTACCATTGAATTTACCACCAATACATCAGTGACTAGAACTCTGGGCAGCCTCCTCATGGATTTCAGAACCAGAGACGAAGACGCTGTTTTGCTTCGGGCTATGGAAGAAGTGGACTCCCTCCAGATAGCTATTAAGAACTCCTCCTTGCTTGTTGACATCAGGAGTGGGAATAGTATTGAAGGTGTCAGCTTCCTGAGTCAGAATGCTGTCACCGATGGCGCCTGGCATACAATCTCTCTGTCAATGGAGGAGCCTTCTGCACTGTCTTCCAGATGGGTGGCTCATTTGGATGGATCTATTAATATGACTCTGCAGGGAAATGCTGGGAACCTGGACTTCTTAAAGAACAACGCACTGATTGTTCTAGCTGAAAACTTCACAGGCTGCCTAGGACAAGTGAAGATAGGAGGGATCTACCTGCCATTCACCTCCCATCTCTCATATCCTCAGCCAGAACAGTTCCAGCAGTCCAGCAGAAGAACTATCCAGTTAGGCTGCACGGGGGCTGATGTTTGTGCTTCTAGCCCTTGCAGCAATGCTGGCACCTGCAGGGACTTGTTCAACTCCTTCAGCTGTGCCTGCAGTGCTGGCTGGGAGGGGCTGCTGTGCGAGTCCAATACTGATGACTGCCAGTCAAGCCCATGTGTTCATGGAAACTGCACCGATAGACTAGCAGATTTTCAGTGTGAATGCTTCCGGGGATATATTGGGAAGAAGTGTGACATCAATGTGGATGACTGTGTGCGGCACCAGTGCCAAAATGGAGCTACCTGCATTGATGGGGTTTATGGCTACTCCTGCAAGTGCCCAGCACAGTATTCAGGACCTCGCTGCGA
Seq A exon
GTGGGTACCTTGGTTGGTTTGAACTGGGATAGAGAAGCCCCCATATAAACTGGACTTCTCCTTTGGGGCACTTGGGGAATTTTTTTAATAAGGGTTATATTTATAGCATTTGCATTGGGTTGGAAAAAAATTCCAGCCTGTTTTAGTTACAGAGATAAGCTTCATATCAGTAAAGGAAGTAGGAATCAATGTATTATTTAGACTTCCATCTACTTGTGCTGTTTAAACTGAATATTGAGATAAATATTTAAATGGTTGAACTTCAGTTCTCAGATCCACTGAGGTTGAATTTCCTGTTGTTTACTCCTTTTCTGCTGCTGATAATTATCTAGTGCTTGCACTTTTCTTTTTGTGACCTAGCTGTGGTGCAGTGTGGTATTCCAACAATATCCTATCGCTACTTCTATTTTCTTCAGCAAGAATAAGCAACTGTGAGAAGAGTCCCAGTACTGGACGCTGCTACCACATATTCTACAAGCAGTACAAACTCCTTTTTGTGGGATGCTTAAAGTAATATTTGGTTACTGTGGAAAAGTTCTGAGACTTTTCCCTTCTCAAATTGTGTCAAAGCCTTTCCTAGAAAAACCAATGACTGTGCTTATGACCCTTGCCAGCTCAGACTCCACTGTATCCGAGCATGCTTTTACCTTCCTCACAACTGATGGCTTTAAAGGTGTTCTTCTGCTTTTCCCAG
Seq C2 exon
ATGGCCGTTCCCACCTGAGCAGTGTGGTAAGAACTTCACCTGTCTGAATGGTGGCAAGTGTACCACTGAGACCTGGGGAGCCAACTGCACTTGCAAGCCAGGCTTCACTGGAAGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001169:ENSGALT00000038754:9
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:
PF0221019=Laminin_G_2=WD(100=40.7),PF0000822=EGF=WD(100=10.7),PF0000822=EGF=WD(100=12.8),PF0000822=EGF=WD(100=13.1)
A:
NA
C2:
PF126612=hEGF=PU(84.6=27.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAACTCCTTCAGCTGTGCC
R:
CTCCCCAGGTCTCAGTGGTAC
Band lengths:
358-1052
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]