BtaINT0102945 @ bosTau6
Intron Retention
Gene
ENSBTAG00000025424 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr23:26992976-26994458:+
Coord C1 exon
chr23:26992976-26993499
Coord A exon
chr23:26993500-26994074
Coord C2 exon
chr23:26994075-26994458
Length
575 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGC
5' ss Score
5.03
3' ss Seq
GCCATCTCCTCACCCCACAGTCC
3' ss Score
9.46
Exon sequences
Seq C1 exon
GGTTTTGAAGGCCCCACCTGCAGCCACAGAGCCCCCTCCTGTGGTCTCCATCACTGCCACCATGGTGGCCTGTGTCTGCCCTCCCCCAAGCCTGGACTCCCACCCCGCTGCGCCTGCCTCAATGGTTATGGGGGTCCGGATTGCCTGACCCCACCAGCTCCTTCAGGCTGTGGCCCTCCTTCTCCATGCCTACACAATGGCAGCTGCTCAGAGACCCCCGGGCTGGGGGGCCCAGGCTTTCGCTGTTCCTGCCCTGCCAGCTCTCCAGGGCCCCGGTGTCAGAGGCCCGGAGTCAAGGGATGCGAGGGCAGAAGTGGAGATGGGGCCTGTGATGCTGGCTGCAGTGGCCCAGGAGGAAACTGGGATGGGGGGGACTGCTCCCTGGGGGTCCCAGACCCCTGGAAGGGCTGCCCCTCCCACTCCCGGTGCTGGCTTCTTTTCCGGGACGGGCAGTGCCACCCACAGTGTGACTCTGAAGAGTGTTTGTTTGATGGCTACGACTGTGAGACTCCTCCAGCCTGCAT
Seq A exon
GTGAGCCTGAAACTGATTTGGGATGATGGGCAGGGGGTGGTGGGGGAGGCAGGATGAAGACAGAAGGACACAGAAGAGTCTGAGTTACAGTGTGACCATAGCCTCATGCTCCGGGGAGCTTCCACTCTAATAATCATCGCTAAATAGGGATAGAAGACACTAGACTCCAACCCAAGGGAATGAGGCAGCATGAATATTTAACGTGGGGACCAAGAAAGAGGGCACTGCCTGTCTGGGCTACCCTCTGAGTATCATGGGAACCCTGGCCTCAAGCCAGGCAACTCCTGTTGCCATGGAGAATCTCCCCTAGCAACCAGCATCCCTGAGGGAAAAGGGCTCCCTTTTAGGGAGCCAGGAGTTGGGGAGGGTAGAGAGGGGACAGTGTTAGGAAACAAAGGTCAGTAGACATTAGGGTGTCTGGACTAGCTACCGTCCAGGGAGTAAACCCACTACTCCAGAACTGCCCCCACTAAGCAAAACAGAGCCCTAGAGTCTGTAGAGTATCAGGAATCCTTTCTGGGACGAGGGAATCCAGTTTCTTTAGGGTCCTGAGCCGCCATCTCCTCACCCCACAG
Seq C2 exon
TCCAGCCTATGACCAGTACTGCCGCGATCACTTCCACAATGGACACTGCGAGAAGGGCTGCAACACGGCAGAATGTGGCTGGGACGGGGGAGACTGCAGGCCGGAAGATGGAAATTCAGAGTGGGGGCCCTCCCTGGCCTTGTTGGTGGTGCTGAGCCCCTCAACCCTGGACCAGCAGCTGCTCGCCCTGGCCCGGGTGCTGTCCCTGACTCTGAGGGTAGGGCTCTGGGTGAGGAAGGACAGTGAAGGCAAGGACATGGTGTACCCCTATCCTGGAGCCCAAGCAGAAGAGGAGCTAGGAGGAACCCCAGACCCCTCTCAGCAGGAGAGAGCAGCCCCCCAAACAGAGCCTACAGGCAAGGAGACAGATTCCCTGAGCACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025424:ENSBTAT00000050083:21
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=0.302
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(14.7=2.9),PF0000822=EGF=WD(100=20.6),PF0006612=Notch=WD(100=22.9),PF0006612=Notch=WD(100=21.7),PF0006612=Notch=PU(12.8=2.9)
A:
NA
C2:
PF0006612=Notch=PD(84.6=25.6),PF068168=NOD=WD(100=39.5),PF076847=NODP=PU(4.6=2.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTACGACTGTGAGACTCCT
R:
GTCTGGGGTTCCTCCTAGCTC
Band lengths:
345-920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]