HsaINT0188799 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr6:28093191-28094699:+
Coord C1 exon
chr6:28093191-28093608
Coord A exon
chr6:28093609-28094560
Coord C2 exon
chr6:28094561-28094699
Length
952 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGA
5' ss Score
5.29
3' ss Seq
ACACACCTCATTTTCCCTAGGTC
3' ss Score
9.34
Exon sequences
Seq C1 exon
ATAGAGGATAAATCTCCTGGCAAAGCCCAGAATGACCACAGCCCTGGAACCTGAGGACCAAAAAGGACTTCTGATAATTAAGGCAGAGGACCATTACTGGGGACAGGATTCCAGCTCACAAAAGTGCAGTCCTCACAGGAGGGAACTCTATAGACAACACTTCAGGAAGCTCTGCTATCAGGATGCACCTGGACCCCGTGAAGCTCTTACCCAGCTGTGGGAGCTCTGCCGTCAGTGGCTGAGGCCAGAATGCCACACCAAGGAGCAGATTTTAGACCTGCTGGTGCTAGAACAGTTCCTGAGCATTCTTCCTAAAGACCTGCAAGCATGGGTGCGTGCACACCATCCAGAGACTGGAGAGGAGGCAGTGACGGTACTGGAGGATCTGGAGAGAGAGCTTGATGAACCTGGAAAGCAG
Seq A exon
GTGTGAAGGGGCAGTCATCTGGCTGTGAGTGATCAGGGGATATGGATGGAGCCAAAGCAAAAGGCATATGAAAGAACATCTGAAAATATTTATCCTCTAAAGAACAAGGCATAGGAAGGGACCTGACTACCTATGTCAAATAATTAAAGTGTGGCTGGGTAAAGAGAGGAGAGTCACTAGACTGATTCTATGCCTGTTTGGAAGGCTAGGATCAGTGGGAAGTTACCAAAAGGCAATCAGGTATCAGAGGAAAAGAAATAATTTTCTGCCATTCATAGATACCCATAAATAAAATAGGCTACCCCATAAGAAACTCCCTTTCCATATAGGTATTCAAGCGGAGATTCAAGTAGATGTCAAGGATATTGCAGAATAGGACTGTCCAACAGAAATATAATGCAAGCTGTATATGTATTTAAATTTTCTAGTAGCCACATTAAAAAAAAAGGTGAAATATATATTTTATTTAGCCCACAATATTTAATCATGTAATCAATATTTTTAATGAGGTATTTTAGATATCTGTGCTTTAAATTTTCAAAATTTGGTATGTATCTTACATTTAGCTTATCTCATTTGTACTAGCCATATTTTAAGTACTCAGTAACCACATTTTGCTAGTGACTACCATATCGGATAGCATGGTTATAGAAGAAATGCTCCCATTTGCTGGAAGTTGGGCTAGATGATTTTTAAGCTACCTTCCAAATCCCAGTGCTCTGATCCTGGACTTCTGCAGATCAATGAAAGAAGAGACGTTGAATTTTACTCTCTAGTGTCCTGAATTGTAGAGATTAGCCTCTGTTCCTTCTCCTAGCCATTATTGCCATTTACAATGAAATGAGAATTTGTCCCCCCTTTCTATGTCCCTGGAAGATGTTTCATTTGATTGTTTTATCTGAAGTTACTTAAGTTTCCATAAAATTCACCTTACACACCTCATTTTCCCTAG
Seq C2 exon
GTCCCAGGCAATTCAGAAAGACGGGACATACTCATGGACAAGTTGGCCCCCTTGGGAAGGCCATATGAATCACTGACTGTCCAGCTCCATCCCAAAAAGACCCAGCTGGAGCAGGAAGCTGGGAAACCACAAAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
-ZSCAN16:NM_025231:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
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
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGAAGCTCTTACCCAGCTG
R:
TTGTGGTTTCCCAGCTTCCTG
Band lengths:
354-1306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)