HsaINT1025130 @ hg38
Intron Retention
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32198926-32201006:-
Coord C1 exon
chr6:32200831-32201006
Coord A exon
chr6:32199146-32200830
Coord C2 exon
chr6:32198926-32199145
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
ENSG00000204301:ENST00000375023:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.150 A=NA C2=0.446
Domain overlap (PFAM):
C1:
PF076847=NODP=FE(90.8=100)
A:
NA
C2:
PF076847=NODP=PD(3.1=2.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]
SPECIAL DATASETS
- Autistic and control brains