HsaINT0114911 @ hg19
Intron Retention
Gene
ENSG00000234876 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:7884]
Coordinates
chr6:32166703-32168783:-
Coord C1 exon
chr6:32168608-32168783
Coord A exon
chr6:32166923-32168607
Coord C2 exon
chr6:32166703-32166922
Length
1685 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
GACTCTGTCTCTCCCACCAGCAC
3' ss Score
9.75
Exon sequences
Seq C1 exon
GTTTGTGGTGGTCATGGGTGTGGATTTGTCCCGCTGTGGCCCTGACCACCCGGCATCCCGCTGTCCCTGGGACCCTGGGCTTCTACTCCGCTTCCTTGCTGCGATGGCTGCAGTGGGAGCCCTGGAGCCCCTGCTGCCTGGACCACTGCTGGCTGTCCACCCTCATGCAGGGACCG
Seq A exon
GTAGGTGACCCCTTGCCACTTTCTCTGACCTCTGTTCCCAGGCCAGCTCTCATGCTAGCAACAGGCAATGGAGGCTGAATCAAACAGGACAGCTGAGACTGAAAATGTTCTTTGTGGGGACTTACTTTCCCTAACCCCGCTTTCTCTAACTGAATCTCCCACTGGCCCATTTGTTCTACAGTCTCCTTCCTTATTTCCCTAAGCACATTATCCTAACCTCTGTCATAGCCCTCCAACAAAGGGATGGTTTATCTTCTCTACCAGACTGAGAATACCTAATAGTCTTTGTATCAGACAATTCATAGTACATGAAAGAATAATAGGCTGGGCGCAGTGGCTCATGCCTATAATCCCAGCACGTTGGGAGACCAAGGCAGGTGGATCACGAGGTCAGGAGATTGAGACCATCCTGGCTAATGCGGTGAAACCCTGTCTCTACTAAAAATAAAAAAATTAGCCGGCTGTGGTGGCGGGTGCTTGTAGTCTCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGTGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGGGAGACTCCATCTCAAAAAAAAAAAAAGAAAAATAACTGCTATATCGTACTTTGTGCCTTACTCTAAGCATTTTACATTGTTACCTCATTTAATCCTCCCCCACAACCCCATGAGGCACGTACTGCTGGTTGAGTATCCCTTATCTGAAATGCTTGGGAACAAAAGTGTTTCAGATTTCGGATTTATTTTGGAATATTTGCATTATACTTACTGGTTCAGCATCCCTAATACAACATCCAAATGCTACAATGAGCATTTCCTTTGAGCGTTATGTTGGTACTCTAAAAGTTTCAGACTTTGGAACATTTCAGATTTGGGATTGGGGTTATGGATACTCAGCCTTTTTTTGTGTGTTTGTTTTCTGAGACAGTCTTACTCTGTCAGCCACACTGGAGTACAGTGACGCCATCTCAGCTCACTGCAACCTCTGCCTCCTGGGTTTAAGCAATTCTCTTGCTTCAGACTACTGAGTAGCTGGAATTACAATGGCATGCCACCATGCCCTGATAATTTTTTTTGTTTTTGTTTTGTTTTGTTTGAGACAGAGTCTTGCCTTGTCGCCCAGGCCGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCCACCTCCCAAGTTCACGCCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGTGCCCGCCACCACACCTGGCTAATTTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCACCCGCCTCAGCCTCCCAAAGTGCTGAGATTATAGGAGTAAGCCACTACACCCAGCCACTAATTTTTATATTTTTAGTAGAGAGGGGGTTTTGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGGCCTCATATGATCCACCTGCCTCAGCTTCCCAAAGTGCTGGGATTACAGGCATGAGCCACTGTGCCCAACCTCAATCTATATTATCATCCCCATTTTGCAGATAAGGAAACCGAGGCAAAGACCGGCTACTAAACTTGTCCAAAGGTCTCCCAATAGTAATCAGTCTCACCAGGAGTGGCCTCTCTTTGTGACTCTGTCTCTCCCACCAG
Seq C2 exon
CACCCCCTGCCAACCAGCTTCCCTGGCCTGTGCTGTGCTCCCCAGTGGCCGGGGTGATTCTCCTGGCCCTAGGGGCTCTTCTCGTCCTCCAGCTCATCCGGCGTCGACGCCGAGAGCATGGAGCTCTCTGGCTGCCCCCTGGTTTCACTCGACGGCCTCGGACTCAGTCAGCTCCCCACCGACGCCGGCCCCCACTAGGCGAGGACAGCATTGGTCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000234876-NOTCH4:NM_004557:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTGGTGGTCATGGGTGTG
R:
GGAGCTGACTGAGTCCGAGG
Band lengths:
350-2035
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)