BtaINT0128995 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021318 | SCAMP5
Description
Bos taurus secretory carrier membrane protein 5 (SCAMP5), mRNA. [Source:RefSeq mRNA;Acc:NM_001166565]
Coordinates
chr21:34091629-34092271:-
Coord C1 exon
chr21:34092170-34092271
Coord A exon
chr21:34091747-34092169
Coord C2 exon
chr21:34091629-34091746
Length
423 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CAGCTGGCCTGTCTCTGCAGCGG
3' ss Score
7.1
Exon sequences
Seq C1 exon
GACCGACAGCTCCTTTAGCTTCATGGCATTCTTCTTCACCTTCATGGCCCAGCTGGTCATTAGCATCATCCAGGCCGTGGGCATCCCAGGCTGGGGTGTCTG
Seq A exon
GTAAGAGACCAGGGTGTCTGGGACTGACCCAGGGCTAGCTGGGCGGCAACTGGGGTGGGTCCTTTGCTTACTTCTGTGGGCTAAGCTGCCTGGCCTGTGGGAACACCATGAGTTATTGGAAGTGTGAAGGGATTCAGGATAACTTAGTAGATACAGCATAGCATCAGAGGAGAATAAGGCAGTGGTTTTTAGGGGTGATGAGGGATATCAAGCATCATGAGATAACCCAAGAGAAGGAAGCCTTATGCTCTGAGAAGCTTGTTTCCTGAGCCAAGGGTTCTTCCTAAAGCACTGACACAGGCCCTGTCCATCCATTGATATGGTCTCTCTCTGTGGCAATGAGAAGGTCCCTTACTCTAGTGGGGCGGCTCCTGGGTGCCCGTCACTGTGCCAGGCAGCCCCACAGCTGGCCTGTCTCTGCAG
Seq C2 exon
CGGCTGGATCGCCACCATCTCCTTCTTCGGGACGAACATTGGCTCAGCAGTGGTGATGCTCATCCCCACCGTCCTGTTCACGGTCATGGCCGTCTTTTCCTTCATTGCCCTCAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021318:ENSBTAT00000065890:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF041448=SCAMP=FE(19.2=100)
A:
NA
C2:
PF041448=SCAMP=FE(22.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTTTAGCTTCATGGCATTCT
R:
GCTGAGGGCAATGAAGGAAAA
Band lengths:
208-631
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]