HsaINT0112267 @ hg19
Intron Retention
Gene
ENSG00000078114 | NEBL
Description
nebulette [Source:HGNC Symbol;Acc:16932]
Coordinates
chr10:21097439-21098827:-
Coord C1 exon
chr10:21098735-21098827
Coord A exon
chr10:21097589-21098734
Coord C2 exon
chr10:21097439-21097588
Length
1146 bp
Sequences
Splice sites
5' ss Seq
CTGGTATTA
5' ss Score
2.14
3' ss Seq
ATATTTTCCCTCCAATATAGAAA
3' ss Score
7.37
Exon sequences
Seq C1 exon
ACCTCAAAGTTTGGCGCACAGATCCTGGCTCCATCTTCGACCTTGATCCCCTGGAAGACAATATTCAGTCTAGAAGTCTCCATATGCTCTCTG
Seq A exon
GTATTACTCACTTTTTAGTTCATCCCATTTATGTGGTTTTGTCCCAAAAGTGAACCACTGTGAACTGTAGAGGTTCATTGTACTGTGTAATGTAAATTTTAAAGCTGAGAATTTGGCAAACCAAAAAAATGCTATGCTACTTTTAAATACAATTAGTCATTTATGAAAAGAAAACTTTTTAATATATCTTAATTAGTCTGTCCTAGATTCATTTAAATAAGCTTTTTATTAGTAAGAATGCTTTTATATTATTTCTGGGTTTACAAATACAGTTATTTGGATTGCACTAAAGTGCTGAGACAAAAGGAGGTTTGTTTCATGAAATACATTGTTATAATTTTTTAAAGGTAGATTTAAAGAATTATATATAGAACAGTAGAAAGGTTTTTTACAGGGCATCATAGATGTCTTAAAATAAATTTTCAAGTATCTTTAAAATTTTCTTTGACATTTTATATAATGTAAAATGAATAGTTTACATGGCAAGCATAGTTGGCTTTTAACTTAGATTGCAAGTTCATAATTAAAGGCAAAAAAATGAATAGTTGGGGTACGAATGATGGCTTGATTTGACATTTCAAATTTTCTCTGACAGTTATGCAGTTATGTTAAACAATAGATAGCTATGTCATTTAGATCTTGCTCTAACCCCTGATTTCTACTCTATATTTAATTTTTGATGTGAATAGAATTGAATACCCAAGGCAAAGCAGGAATTCTAGTACTTTTATAGTCACTTTCATTCATATAGTTAGCCAAACAGTGTCACTTGATTTTCTAAAAATAAAGAAAAGGCAACACATACTATATATCTGGTGATAGTTTAAAGGAATTATTGAAAACCAGGCATTACAATTAACAAAAATTTATTAATTTACCAATGTTTTCTTTGTCCTTGTCAATTTCCTATCCCTTACCCGTCCTTTAAAATTGAGACTTAAAAGAGCATAAAACGATGGTTAAGTTATTCATGTAGTTGATGCAATGCATGCTGAAGTTTGGGAATAGGTGCCTAGCGCTGAGATTTTGAGTTATTCTTTACTAAGAGATGGTTTTTCTTCTCTGTTAAGCTTTTAAGTAATTTTTTGTTGATTTTGTTTTTCGAGTCACTTAATCACACGTGTAAATATTTTCCCTCCAATATAG
Seq C2 exon
AAAAGGCGAGTCACTATAGGCGACACTGGTCTCGATCCCATTCCAGCAGTACTTTCGGTACAGGTCTCGGAGACGACAGGTCAGAAATCTCCGAGATTTACCCTAGCTTTTCATGCTGCAGTGAGGTAACAAGACCGTCTGATGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000078114-NEBL:NM_006393:25
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.249 A=NA C2=0.248
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGTTTGGCGCACAGATCCT
R:
CTCCTTCATCAGACGGTCTTGT
Band lengths:
238-1384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)