GgaINT0038701 @ galGal3
Intron Retention
Gene
ENSGALG00000002922 | NOTCH2
Description
NA
Coordinates
chr8:4247479-4248604:+
Coord C1 exon
chr8:4247479-4247663
Coord A exon
chr8:4247664-4248471
Coord C2 exon
chr8:4248472-4248604
Length
808 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
TACTTCTTTTTATCCTACAGTGT
3' ss Score
8.56
Exon sequences
Seq C1 exon
GAATCACAGTGGATCAGCTGTGCCAGCACTCCGGTCATTGCCTCAATGTGGGAAACACACACCGCTGTCAGTGCCGCGTGGGTTACACTGGCAGCTACTGTGAGGAGCAGCTGGATGAGTGTGACTCCAGCCCGTGCCAGAATGGTGCTACCTGCAGGGATCATCTGGGTGGATACCAGTGCGAG
Seq A exon
GTAATGCTCAATGCTTTAGTAGGAAGTGGCCTAAATATTTAGGGCGTTGTAATGCAAAGGCATCGAAAGAAGCCTGAAACACGTGCAAGTGGTAGAAGAGATTCACAGAGTGGATAAAAACCACCTAACACCTTTAAATATATATATTTTTTAAATGCAGCTGTGGCAGTGCTCCAGAAAGGCCTACCTTAAAATTGAACTAGAAGTGCATTTGTAAGGAGGTGTGGTAGATAAGAAGCTCTAATCCTACTTTTGCCTGAGATGTGGTTTGTATTAAAATATATGTAGAATGCATCAAAGGAATGTTGTATTCTCCGTACTGGGTGGGCAAATATCCGTTGCCTTTCAGAGTGAGGGATGCCCTTCTCTGCCCTCTAACTCCTACAGCTGATACAGAGAGCAATGGAGACCATAATGTCATGGTCTGTCAAACTTCTTAAGCTTTGGAGAGTGGTAGAGCCCCTTGGAAGCACAGGCCCAGAAGGAGGACATGAATATTATATAAACCTGAAGTCACAACTTCCAAACTGGTCTCCATGGTGAGAAGTTTGGGGATTTACTTGCCATATTTTACAGGAGGAGTCACTTAAATTCAGACCACATCGTGCAGTTGAGAAGTTGTGTGATGAAACTGTGTGCTTGAGCTGTCTGTCTGTATAGCCCTTGAAATCACTTGCAGTTGTATGGCAACAAAGGAAGTCAGAATCTGTCCCTCTGAGGGTTTGCTTTGTCTGTCAGCCTTTCTCAGGTGCCTGCTAATGTAATGGGGGTTATGAAAAGATTATTCCTACTTCTTTTTATCCTACAG
Seq C2 exon
TGTGTGCCTGGATACCAGGGTGTCAACTGTGAATACGAAGTGGATGAGTGCCAGTTTCAGCCCTGCCAGAATGGAGGAACGTGCATAGACCTTGTCAACCATTTCAGGTGTTCCTGTCCACCGGGCACTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002922:ENSGALT00000039988:21
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:
PF0000822=EGF=WD(100=48.4),PF0000822=EGF=PU(67.7=33.9)
A:
NA
C2:
PF0000822=EGF=PD(25.8=17.8),PF0000822=EGF=PU(90.9=66.7)
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:
ATCACAGTGGATCAGCTGTGC
R:
TGCCCGGTGGACAGGAAC
Band lengths:
310-1118
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]