HsaINT0188798 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr6:28092387-28093608:+
Coord C1 exon
chr6:28092387-28092455
Coord A exon
chr6:28092456-28093190
Coord C2 exon
chr6:28093191-28093608
Length
735 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TCTCTTTGACTCAATCCCAGATA
3' ss Score
6.06
Exon sequences
Seq C1 exon
GAGTCTAGTCTTTGTTCGGGGCTGTCCAAAGGACGCTAGCTGTTGCACCTGTTCCTCCCTGCGCGTAAG
Seq A exon
GTGAGTGTCTCCCGGCTCCCAGGTGGAGAAAAGGGGACAAGACGCAGCTGTGGTCAGCAGCAACACCCTCCCCACACCTCCCTGTCGCGGGCAGAGTGTAACACTCCTGTCCCTCCCTCCGCCCCCCAACAGATCTACAGGAGAGGATTTGGCCCAGCCTTCCGGGAGAGGATGGGTGGAAGGGGGACACTGGTTGCGGGTTCCTCTGCAGAGGCATCTGTCTGATCCCCTTCCAGGGTTGGCACACATATCCTATAACCAGTGAATCCTGGGGGCACAAGCTGGCCCGTGCATCTCATGGTAACAGAATGAAGAGCCTTTTAACAAAGCCGTTAATAATACTTGGCGTTTATTTAGTGCTTACTAGTGCCCGCTGCCATGCCAGGGACGTTGCATACGTTCTCATGTAATCTGTATATCAACCCTGTAACACACATGAGAATTGTACCTGAGGATCTGTAGTTCTAGTCCAGATAAATAACTTCCTCTAAGTTACACAATAGAGCACAGATTCAAATCATATCCCTGCGTCACTGTTTTTTGTTTTGTTTTGTTTTGTTTTGTTTCAGCTTCCTATAAGACTGTTTTCTCTGATTGACTTCTGGTGGCTTGGCTTCATTATGATGTGTTTATGTTCACAGAAATTTTTGTAATTTCTCTATGGTAACAACTTTTTATGCCTTAGGAGTGTCTCTGAGGCAGGATTCTAAGAGATTCTCTTTGACTCAATCCCAG
Seq C2 exon
ATAGAGGATAAATCTCCTGGCAAAGCCCAGAATGACCACAGCCCTGGAACCTGAGGACCAAAAAGGACTTCTGATAATTAAGGCAGAGGACCATTACTGGGGACAGGATTCCAGCTCACAAAAGTGCAGTCCTCACAGGAGGGAACTCTATAGACAACACTTCAGGAAGCTCTGCTATCAGGATGCACCTGGACCCCGTGAAGCTCTTACCCAGCTGTGGGAGCTCTGCCGTCAGTGGCTGAGGCCAGAATGCCACACCAAGGAGCAGATTTTAGACCTGCTGGTGCTAGAACAGTTCCTGAGCATTCTTCCTAAAGACCTGCAAGCATGGGTGCGTGCACACCATCCAGAGACTGGAGAGGAGGCAGTGACGGTACTGGAGGATCTGGAGAGAGAGCTTGATGAACCTGGAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
-ZSCAN16:NM_025231:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
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
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
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:
TTTGTTCGGGGCTGTCCAAAG
R:
AACTGTTCTAGCACCAGCAGG
Band lengths:
356-1091
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)