HsaINT0138672 @ hg19
Intron Retention
Gene
ENSG00000076067 | RBMS2
Description
RNA binding motif, single stranded interacting protein 2 [Source:HGNC Symbol;Acc:9909]
Coordinates
chr12:56963683-56965639:+
Coord C1 exon
chr12:56963683-56963774
Coord A exon
chr12:56963775-56965481
Coord C2 exon
chr12:56965482-56965639
Length
1707 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TCTCACTGTTATTTCCACAGCAA
3' ss Score
9.29
Exon sequences
Seq C1 exon
GCTATGGCTTTGTAGATTTTGACAGCCCTTCAGCAGCACAGAAAGCTGTAACAGCACTGAAGGCCAGCGGTGTACAGGCACAGATGGCAAAG
Seq A exon
GTAAGGGTACTACCCCATGTCTGTTCCTCCAAGGGGTTTGTGGTTAGCACCAAAGTTCCAGTTCTAAGGTTTCCAGAGGGCTTAAGAACCATGAAATTGAGTGGGCAAGGGCTATCCGTGGTGCTTTCTAGACAGTCCATGAGCACCCCTGGCTGCTGGAGGAAGATGTATTCAAAGTCTATGGCAGGTAGCTCTATCAGCTCTCTTCCTTTCACCAAGTTATTGGCAGCAAGAAAGGTAAGGTGGCCTCTTCCGGTACTCCTGCTGCTTCCCCGTGTTCCCTATATTATTCACCCTGGCCCCACTTCCCTACCAGACAGCTTGTGGTGGTTTTGCAACATTCTCTGAACAAGTCAATTGTGCAACTCAGAATTTCAGAACAATGCTCTCCACCTCCTAATGTTGTTCCCCATACGGGCTGGGTAGTGGGCTGGGGAGGCAGGAGGGAAGCCACATCAAGGGAGGAAACTGTCTCTTCTCAGATCTGTCTGAAACTGTTGTCTTCACCTAGACTACTAGAAATCTAGAAGCTTTTCTCTCACTTCTTCTGTTAGGTGGGATTGTCTCCTTGCCTTTCTATTTTATTTTATTTATTTATTTATTTTGAGACAGCGTCTCGCTCTGTCGCCCCGGCTGGAGTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTGCACCTCCCGGCTTCACGCCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGCACCCGCCATCACCTCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACGTTGTGATCCGCCCACCTCAGCCTTCCAAAGTGCTGGGATTACAGGCATGAGCCACCACGCCTGGCTGTCCCTTTGCCTTTCTGAAGCTGTTATGAGTATTATACATAGAGCTTGTGAGGCAGGCCTGCTAGACACCTTTTCTGTAATGGTTAAAGAAAAGGAAAACAAAAGGAAAAGGCAGAAGAGGATTAAGGTTGCTGGTGACCACTGTTTAGGGCAGAGTGACTGCTTAAATTCTTAAAAATACAACTATTGGATGATATTGCCATTTTGCACATTCTGTCCCCTGGAAGGGCTCTCCTACCTCTTCTTCCAGGAGTAAAACCCTCTGACAAAAGCTCAAAGGTTTAGGAGCCTTCAGGGTCCTAGGAGACTGTAGCTTTCAGGGCTCCGTGGTGACACAGTGAACTCTGCATCTGGCTCTCTCCCTGTTCCCTTCTCCCCTCCTCCTGCTCTTCCTCCATCAGGGAGTGAACAGGCATTCCTACTTAGAGGATTCTGCGTGGCTGGAAGAGAAGTGGGGAGGGGCTGCTCAAAACAAGCCAGCCAAGGAGCAAGGCAGTCTGAGGGAATCCAGCCTCTGGGACCGGCTGCTGGGGGAGAGCGGGAATGCTGCTCTGCCTGTTTCTAAAAGAGACAGCCAAACACCATTTATGACTTGTATGATGGGCTTGTATAGTACTAGAAATATTAAATCTGCACTTCTCCCTCCTGGAACTCAATATACAACCCGTGGTAGTGGGACTGGGTGTTAACAAATAGAATAATCTTTGTTTATGTGGGACCCTTCCTATAGTCTCTTTTCTGAAATGTCATTTGTGGGGAGGGCTGAGGGTGGGAGAGGGATAAGAGATGTGAGCCTCATTTTCTCACTGTTATTTCCACAG
Seq C2 exon
CAACAGGAACAGGACCCCACAAATTTATACATCTCAAACCTCCCACTGTCAATGGATGAGCAGGAACTGGAGGGGATGCTGAAGCCCTTTGGCCAGGTTATCTCCACCCGTATCCTTCGAGATACCAGTGGGACCAGCAGAGGTGTTGGCTTTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000076067-RBMS2:NM_002898:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.377
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(38.8=83.9)
A:
NA
C2:
PF0007617=RRM_1=PU(65.7=83.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTTTGTAGATTTTGACAGCC
R:
CTTGCAAAGCCAACACCTCTG
Band lengths:
246-1953
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)