HsaINT0094501 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:46677809-46679703:+
Coord C1 exon
chr17:46677809-46677907
Coord A exon
chr17:46677908-46679436
Coord C2 exon
chr17:46679437-46679703
Length
1529 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
TTTTCCCAAATCATATTTAGGTA
3' ss Score
7.71
Exon sequences
Seq C1 exon
GTTGCTTGTCTGGAGATGGAGCCACTACAGGCGGGCCTGGGCGCCTGGAGTCGGGCATGAAAGAAAATAGCGCCTCATCGCTCTTATCTAAGCCCAGAG
Seq A exon
GTATTTATGAGCGTTTATTCGTCTGATCCGTTTGTTTGGGAAAAAGAGCAGGCGGGCAGGGCAGGCCAGAGACCGACTCCTTTCTGGAGCCAGATCCCTACGAATCTGTCTGTGGTTCGGTCCACCGCCCTCTGTCTGTCTCCTTGGGGGAATATGTAAATACACAGCGGGCTCAGCCATCCGCCAGTCTGGGGTGTCTCTCCCTGCCTCAATGAGGAAGTGTGTGTTCAGAGAGATGGATAGAAGTGTGTACCAATTCTTGAGTACATAACAGAGGGATTGTACAGATACCCCACAGGCAGGATTTATAATTGTAATTTTCTATGCTGTGAGTCTGCAGTCCTGTGGGCAAGCTAACACATTCCAGCTCCCAGGAAAATGTTTCCTAAGTTGTGTTCAGTTCGGGAGTAAAATTCTTGATAGGTAACCTCAGGAGGGATATTTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTGTGGTGTGGTGTGTGTGGGAGGGTGCTGAGACATTGTCCAGGCTTCCAATTTCCTCTAAGCTATAAAGCCCTCTCCCTCAGCTCTTTGAGGTGATGAGCACCTTCTCCCACCACCCCCAACTTTGGCTGGGGTGGGGTGGGATGAAAATATTTCAACTCAATTCTCGTCCTGGACTCTGTTTCTCTGGGTTTGGGGAACATAAATAAATGTTCCCAGGGGTACTGAGTGATCACTCCCATAGGTTGAGGGAGGCTGTTTAGATGAGACACTTTGCCCTAAAATCGGCCCCTCCAAATCAAAGTACAAAGACTTCATTTTCATTATGCAAAGGAGCGGCATCCTCTTTGATCTTTAGGGGAGTGAGCAGTAGTGCTGAACCCACTCTCCCGGTTTCCTACCCGCAGGTCCAGGGGACAACCTGAGGGCCCTGAAGTGTTTCAATACCATGTACCAGCTTGACTTCTCTACATGTCCTTTGGATTGCCCAAAAGCAAAATCTCAGAGGGGCCAAGGACCTTCTAGGGCTGGCTCCCTCAGGGCCTCCTATAGAGCAGCTCCTTGAGTCGGGCCTTATAGCCACCAGAAAGTCACCTCGCCGCAGGAAAGCTATAAAGAGCTGCTCCAGAGGCGCCGAAAGAGGGTGAGGGCTGCAGCCACAGTGTTTGTCCCCAGCACCACCAGGCCCCTTAACCTCGTCAGCTCCTCTAGCCCTCGGCCAGACTCTGGCAACACCTTGGTTTGCCTGGCACCGCAGGCAATTTCCTGGAACCCCACCCCCACCCAGGAACGGGGACCACAGCACCTTTAAAGGAACTGCCAGAGCTTCCTCCTACGGCTTGAAAGCCCAAGCTAATCAGTAACCCGTGAGACAGGGGCCAATATTCAAACGCTGCAGCAGAGGCGCATAGCCTAGCCCTGGCCACCCCCTCTTGGGAAGGAGGTCGAGTTAAGCCGGTGTGGAGGGTCCAACAGGAACGGAAATTACGACGGTGTGGTTCCTTAAGGATTTGGCCCCAGTCCCACTACCAAATTTTTCCCAAATCATATTTAG
Seq C2 exon
GTAGACTTCGCTTGAAAAGATCGAGAATGGAGGAGGGGATCGGCACTCACTTGCAGACATCAACAGTTTCCAGAAAATTCGGTTCAATTCCTTCACCACGGACCCACCAACCAAGGAGCTGGCAAAACCCACTAACCAACCAGGAGAACACAGACCCGGTTTGTCTTTTGACAACCGAGTGGAACTGACGGGGCCGGCGCCTGCCCTGCGGGTCCCCTCCCTTGGCTGAGAAGAAAACCAAATAAACCTTGAACAGCCTTGGCTTCG
VastDB Features
Vast-tools module Information
Secondary ID
-LOC404266:NR_033202:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NonCoding
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
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:
TGGAGATGGAGCCACTACAGG
R:
GCCAAGGCTGTTCAAGGTTTA
Band lengths:
352-1881
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)