HsaINT0149313 @ hg19
Intron Retention
Gene
ENSG00000109686 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:30418]
Coordinates
chr4:152095822-152097839:-
Coord C1 exon
chr4:152097686-152097839
Coord A exon
chr4:152096848-152097685
Coord C2 exon
chr4:152095822-152096847
Length
838 bp
Sequences
Splice sites
5' ss Seq
AAAGTAATG
5' ss Score
1.16
3' ss Seq
GCTTGTTTTTATTTGTTTTGGTT
3' ss Score
0.3
Exon sequences
Seq C1 exon
CTCCCACCATCTTATGAACAAGTTATAAAAGAAATCAACCAAGTTCAAGTTAATACTACAAATAATAATAATGCTGCTGCTACTCCAAGGCACACTATTACTTCTGCAACTCAGACTGACTTTTCAGAAGAAATAGACAACGATCTGCCTCAAA
Seq A exon
GTAATGCAAGTAATTTGTCTTCCCTAATTCTGACCTAGTTCTAGGGAAGTAATCCGTAGGCTTCCAGCCTTTAAAATAATTTGCAATTTGTGCATAATTCATTGAGCTCTGCTGCCCAGTCAGTGTGATCACTGTGTGCTTGCTTTATTTGGGTGTGCAGTGATGATTATAATAGATCATTCTTACAAACTGCAGCCCCAATCTCTTGAGCTTACCCTAGTTTATATCACAAAAACATTATCCGTATAATTCATGGTGGGTATTACCATTGATTCCCTTTATTCCCTCTGAGAAGGATCTTATATTTAGCAACTTATACTTGATAGGATGCTAAGGGTGGTTGTCCTGTTAGGCTTTTTTAAAGTGTTGCACTGTGGCTTATGCCTTTAATCCCAACGCTTTAGGAGACTAAGGCGGGTGGATTGCTTGAGCACAGGAGTTTGAGACCAGCCTGGGCAACATGGTGAAATCCCATCTCTGCAAAAAAATGGAAAAATTCGCTGAGTGTGGTGGTATGTGTCTGTAGTCCCAGCTACTCAGGAAGCTGAAGTGAGAGGATCGCTTGAGCACTGGAGGGTGAGGCTGCAGTGAGCCGTGTTAGAGCCACTGTACACCAGCCAGGGCAACAGAGCAAGACCCTGTCTCAAAAAAAAAAAAGTGTTATATGAAGAGCACTCCTACAGGAAACAGAATAAACATTTCCATTTTTGAATCACTTTTTACTAATTAAAAGAAACCAAAATCTCTTGATATTCCATGTATGTAGTTTTAAATCTGTGTATCTTCTATTTTTTTCCTTATACATTGTTAACGTTATGGCTTGTTTTTATTTGTTTTG
Seq C2 exon
GTTTTGTTTTGGTCTCGTCAGCACTACAGGCACCTCTCAAGCCTCTTCAGCCTTTCTCAGCAGTCTCGTCTGGCAATCTTCCAACAAATGTGGCACCTTTAATCGTCTTTGATATTTCTGAAGAACCGAATTGTCCAGAAAACCCCAGTGCTACAAGATGTCCAGTGCCAAAACCAAGATCAAAAAGCAACCTCAGACCAATACCCAGAGATTCTCACATTAAAGAGCAAAGTCAACAGAAAATCAGCCCAGCAGCCGTAGGAGAGGAGTCATCCCCAGGCCGGCCCCAGTCTCTGCTGGACAACGCTAGCACCTCAGACAGTCAGGCAGTGATGAACATTATGAACACAGAACAAAGCCAAAATAGTATTGTTTCCAGAATTAAAGTGTTTGAGGGTCAGACAAACATAGAAACCTCAGGACTGCCCAAGAAACCAGAAATTACTCCACGTTCACTTCCTCCAAAGCCTACTGTTTCCTCAGGGAAACCTTCTGTAGCTCCCAAACCAGCTGCTAACAGAGCTTCTGGAGAGTGGGACTCTGGGACTGAGAACAGACTCAAGGTGACCTCCAAGGAAGGACTCACCCCATACCCTCCCCTGCAAGAAGCGGGAAGCATCCCAGTAACCAAACCTGAATTGCCAAAGAAACCAAACCCTGGCCTTATACGAAGTGTTAATCCTGAGATTCCGGGAAGAGGGCCCCTGGCTGAGAGCTCTGATAGTGGGAAGAAAGTGCCAACTCCTGCCCCGCGGCCTTTGCTGCTGAAGAAATCTGTTTCCTCAGAAAACCCCACCTACCCTTCAGCTCCACTGAAACCTGTCACTGTTCCTCCCCGACTCGCAGGGGCATCACAAGCCAAAGCATACAAGTCACTGGGAGAAGGGCCCCCAGCCAACCCCCCAGTTCCAGTTCTGCAGAGCAAGCCCTTGGTGGACATCGATCTCATCAGCTTTGATGATGATGTTTTGCCCACCCCATCGGGGAACCTGGCTGAAGAATCTGTTGGTTCAGAGATGGTTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109686-SH3D19:NM_001009555:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.961
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
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:
AATGCTGCTGCTACTCCAAGG
R:
ATGACTCCTCTCCTACGGCTG
Band lengths:
358-1196
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)