HsaINT0162029 @ hg19
Intron Retention
Gene
ENSG00000099994 | SUSD2
Description
sushi domain containing 2 [Source:HGNC Symbol;Acc:30667]
Coordinates
chr22:24577444-24579235:+
Coord C1 exon
chr22:24577444-24577563
Coord A exon
chr22:24577564-24579024
Coord C2 exon
chr22:24579025-24579235
Length
1461 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
CTCAGCATCCTCTCCTCCAGATG
3' ss Score
8.1
Exon sequences
Seq C1 exon
GCCTCGGAGCCACTGCACTGCTGGCTGCAGACACAGGCTGCACCATGAAGCCAGCCCTCCTGCCCTGGGCCCTGCTGCTGCTGGCGACAGCCCTCGGCCCGGGCCCCGGACCCACAGCAG
Seq A exon
GTATGCCTCCCTGCCCTTCTGTGTCCCCGTCTGTCTGTCCATCTGTCTGCAGCCAGGCCTGGGCTGACATCCCTCTGGGCTCAGCCTCTGTCCATCTGTCAGGCCATCTGTGGCTGTGCTAGGGGTGATGGGAAGAAATTCTGAGGGTCCATGTGGAGGGGCAGCCCATGGGGATGGGAGGTCTGAGCCGGGCCCACCCTAAACCTGCTGGTAGCTAGGAGGGAGGCGGGGGAGACCAGCAGAGGCCTCCGCCTGTGTCCCCAGCCCTGACAGGGCGGGATCACGGAGGGGGAGCCAGGATTGTGGGTCCTCATCAGGGTGGGGCTGAATCCAGGAAAGTCTAGGGAAAGCCCCGAACTCCAGAACCAGGACACTGGTCCCAGGCTGCCCCCCGTCCCCCACCCCATTTCCCATCGACCCTCTTGCCACTTATCTCACTTGCAAGCATCTCTCGGCCTCCTCCCCCGACCCCTGTGCGCCACCAAATCCTTGGCCAGTACATATTTATTGTTGCTTTTAAGTGCCAGGCACTGCACTTGGTGAAGTGGGGCCAGCGGGGTGGCTCAGGCCCAGGCCTGGCCCTCGACTGGCCTCTTTTGATGGGGGATGGGGAAGGGCCAGGGAAGTGCAATTCCAGCCTGGGTGCATGCACCTGCCCCAGTCCCTCCCTGCAACCCTTCCTTCATGCCAGCCCCTGGAAATATGGCCTTGCCCACCGGTCTTATGGCCCATAGGAGAAGTTTTGGGCCCGGCGCCCACAGCCCCTTGTGGTGTGCACCCCCACTTCCCTTTCCCCACTGCTGGGACCCCTGCTTGAAATGTCCCTCCTCTCCCCAGAAAGGAGGGGAGCGGCCCTGGCCTTCTGCCCTGAGCACGGAGCTCTCTTTGGGGTCTCAATTGCAGCCCCTGGGAGAGCGAGAAGTGTCACGTTCAGACCCTGCACCATTCCCTACCAGGCCTCAAATGAGACTCTTGGCAGCCATATCCCCCACCCCAGTCCAGGCAAGCAAGAGGGGTTCTTCTGCAGGCTTCAGGGCCCCCAGAAGGCGTGCTGACCACAGACACCCTGGGGAGCCAAGAGAGGTCGAGGGCTCCAGCTACCGTGGCCCACTGAGGACCCCTGCCTGTGGGATAGAGGACTTGGTGGCTGAAGGGCAGTCATGCCCAGGGGCTTCTCCTGACCCTGCAGGGCTGAGCGGATGCAGCTTTTTGCCTCTTCTCGCTGCATTCTAGCCCGTCAGTCAGGGCAACAGCCAGATGGTCTGTGCTAAGATTCATCCCATCCCCACGGGCCCTGTGGCTTTCTACTGTGTCCACCTGGTGGCCTGTGCAGTTCCTGGCCAGCGTTCTCCTGGGGATGCTGCTGTCTAATGGGCTGTGGGAGAAACAGAGACAGGCCCTGCACATGGGGCAGCCAGTCCAGTACCCGCCGGGCCAGGCCCTCAGCATCCTCTCCTCCAG
Seq C2 exon
ATGCCCAAGAGAGCTGCTCCATGCGCTGTGGCGCCCTGGACGGGCCATGTTCCTGCCACCCGACGTGCTCTGGCCTTGGCACCTGCTGCTTGGATTTCCGGGACTTCTGCCTGGAGATATTGCCCTACTCAGGATCCATGATGGGCGGCAAGGACTTTGTGGTGCGGCACTTCAAGATGTCCAGCCCCACAGACGCCAGTGTGATCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000099994-SUSD2:NM_019601:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0103312=Somatomedin_B=WD(100=56.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGGAGCCACTGCACTG
R:
CAGATCACACTGGCGTCTGTG
Band lengths:
326-1787
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)