BtaINT0102899 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007909 | NOTCH2
Description
notch 2 [Source:HGNC Symbol;Acc:HGNC:7882]
Coordinates
chr3:23423876-23424915:+
Coord C1 exon
chr3:23423876-23423989
Coord A exon
chr3:23423990-23424801
Coord C2 exon
chr3:23424802-23424915
Length
812 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TCATCATGTGCCCTTTGAAGGAT
3' ss Score
8.02
Exon sequences
Seq C1 exon
GTTTCAAAGGTGTGCATTGTGAGTTGGAGATAAATGAATGTCAGAGCAACCCTTGTGTGAACAATGGACAGTGTGTGGATAAAGTCAATCGCTTCCAGTGTCTGTGTCCGCCTG
Seq A exon
GTAAGTGCCCACCACCTGCCCCTGTTTTCTTTGAAAGCACAAAGCCGACTGACCGCAGGGAAGAGAGGAGGGAGAGAATGTGTGTGGGCTCTACATGAGGAAGTCATTAAAGTGAGCGCTTTGGGATAGGAGTGTGTGTGTACAGAAGTGGGGGATTTGCTTCAGCTAGTATATCTTCCAAATCCTCTGTGGCCAGAAGTCCAAGTCTGTTCTGAATGGCCCATGACCTCGCCGTCTGTGTGTACATTTCAGAAAGTTCATACCTCACGGAAGCCCTTAGTTTTAGATTATTCAGGATTTTATTTTTTCCTGTGAGTCATATTCTTGAAACCTTTCTCTGAGATGATTATTTTTAGACATTTCACCCATGGGTACATTAATAGCACAAGTCAGTTCTTTCCAAAGAATGCTGTGTCTCTCCTTTTGCCCCCCTCAGCCATTGTGGAAGACATGCTGAATTTTCTGCCTTAGGCTATAGCCTCTCTTGTTGTTTCTTCAGAGAGAAGGTCCCAGTTCCTGTGCAGCTACATTCACTTCTTAGGGGGTTCTGCCTGTATGCATTCAGTTCCTATTTTAAGTTGAAGTGAAATCTATACTGGGAAGAAAAAGAGGTGAGAGAGACACCCTGGTGCCTCTGATGCCCTGAGCCTCACCCGTTATCCCAGGTACCTGTTCAGGAGAATAATTCTCCATGTGCTGATCCAGGGATATAAACCCTGCCAGTAACAGCCCAGTTCTTCTTGGGCATCATTCTGATAGTAAGGAAAACATAAGATAATCCTTTGACTTGTGTCATCATGTGCCCTTTGAAG
Seq C2 exon
GATTCACGGGACCAGTTTGCCAGATTGATATTGATGACTGTTCTAGTACTCCGTGTCTGAATGGGGCAAAGTGTATAGATCACCCGAATGGCTATGAGTGCCAGTGTGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007909:ENSBTAT00000010400:9
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:
PF0000822=EGF=PD(16.1=12.8),PF0000822=EGF=PU(80.6=64.1)
A:
NA
C2:
PF0000822=EGF=PD(16.1=12.8),PF0000822=EGF=PU(83.3=64.1)
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:
GTTTCAAAGGTGTGCATTGTGAGT
R:
CACACTGGCACTCATAGCCAT
Band lengths:
222-1034
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]