HsaINT0102108 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr2:172944856-172945587:+
Coord C1 exon
chr2:172944856-172944934
Coord A exon
chr2:172944935-172945055
Coord C2 exon
chr2:172945056-172945587
Length
121 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTTT
5' ss Score
2.06
3' ss Seq
GGCTGGGTGCTGTGTTACAGGTC
3' ss Score
7.67
Exon sequences
Seq C1 exon
AGCCAATCATCACGGAGGGATCCCCTGAATTTAAAGTCCTGGAGGATGCATGGACTGTGGTCTCCCTAGACAATCAAAG
Seq A exon
GTGTTTGCTTTCTGCTCTGTTGCTTTTAAATTGTATGGGAAAGGAAGATTGGTCCGACGGCGCGCTTGTGGCCCGGCCGGAGCTTGCGTGCGCGTTCTGACGGCTGGGTGCTGTGTTACAG
Seq C2 exon
GTCGGCGCAGTTCGAGCACACGGTTCTGATCACGTCGAGGGGCGCGCAGATCCTGACCAAACTACCCCATGAGGCCTGAGGAGCCGCCCGAAGGTCGCGGTGACCTGGTGCCTTTTTAAATAAATTGCTGAAATTTGGCTGGAGAACTTTTAGAAGAAACAGGGAAATGACCGGTGGTGCGGTAACCTGCGTGGCTCCTGATAGCGTTTGGAAGAACGCGGGGGAGACTGAAGAGCAACTGGGAACTCGGATCTGAAGCCCTGCTGGGGTCGCGCGGCTTTGGAAAAACAAATCCTGGCCCTGGACTCGGTTTCCCAGCGCGGTCAACGCATCTGGAGGGGACTGGAGGAAACCCCCTTGTTGGAAGAGATTCCAAGAGAAGCACGGTTTTCTCTTTCCCTTGCCCTGACTGTTGGAGTAAAAAACCTCTTAAATCCATTGTATCAGAGGTCCTTACCTCTCTGACAGTTACAGTGATCTTTGTATCTGAACTTTGCACGTCTGCCGAAAAATCCGAACCTGTTGACTGGGA
VastDB Features
Vast-tools module Information
Secondary ID
-METAP1D:NM_199227:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGGATGCATGGACTGTG
R:
TATCAGGAGCCACGCAGGTTA
Band lengths:
244-365
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)