BtaINT0128971 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005844 | SCAMP2
Description
Bos taurus secretory carrier membrane protein 2 (SCAMP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001102170]
Coordinates
chr21:34219003-34221313:+
Coord C1 exon
chr21:34219003-34219101
Coord A exon
chr21:34219102-34221195
Coord C2 exon
chr21:34221196-34221313
Length
2094 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCG
5' ss Score
10.05
3' ss Seq
ACCTCCTCTGCACCCTCCAGGCT
3' ss Score
7.37
Exon sequences
Seq C1 exon
ACAAATGCAGCGACGACGGTTCCTGTCTCACAGATGCCCGGGGCCTCGCAGCCGGCAGTTCTCCAACCCTCAGTGGAGCCCACCCAGCCAACCCCCCAG
Seq A exon
GTACCGTTGACAAGATCCCTTTGGCCTCTCCTTTCCAGAAAGGGACACACCCAGACTGGTGGCTGAGCCCCGAGATTGAGGAGGGGCAGAGGGCTTTCCTCCCGGGCTCCCCTTCCAGGGCCCTCTGGGTCATCTCCTGGGAGCTGGTCACTTGCAGGTGGAGGGTCTGCTCTACCAACTATATCCTCTCCCCCAACCCCATGACCACCACCCAAAATAAGCTGTACTCACCAGGCCAGGCTCCTTGGTGGCAGGAAGAGCATTTACCCCTATTGTGTCCTTCCAGAACCTCCTCCGGCCTTTGGTTCGTTCTCTCTTCCCCAGGGCCCAGAATCTTTCTTCCCCTCGCTCTCCCTTTTTTTTTTTAAACCTCATTTATTCCCGCCTGCCTTCCTGCGCTCCTCTGTCCCTCCACCAGTACTCTGAGCCTTGTGTGCTCTGGGCCCGACTCTCCCCTCCGTGCCTCCCAGCCCCACCGCCCGCTCCTCGTGGCCCCTGGTGAGCGTGGCCCACAGTGGAGCTGTGTGTTGCAGCTCCTGCTTAGACAGGCCAGCAGGTTCCTGCCCACCAGATTCCTGGCAGTGAGTGAGCTCTCAGAGAGGCAGATGCTGCTAGGAGGAGATAGTATTCTCAGAGACAGCTACCTGCGAAACCTGCCAAAGGTATGCGAAGAGTAGATGAGCACGAGGGAGGGCAAGGTGCCCAGAGCCCAGCCAAGCTGGGCTGTGGGCGCCAGTGGGCCCCAGGCTGCTCCTGTCGTCTGACTGGACTTCTCTGAACGTGCGGCCCCTGCCCAGGCCCCTGGGCCCCACCCCTGGCCCTAGAGCTCTGTGGAGGTGAGGCGAGACTCAGAGGCAAGAGTGACTTCTGTCCAGCTGGGTGGTGGGCTATAGGGACCTGGGCCTACTCAGCTGAAGTTGCAGACTTGGGGAGAGGAGGCTGAGACCCCAGTGTGGTCTAGTGTGGCCACTTCTGGTCCTGCTTCTGCCCCCACTGCCTGAAATTTACCTCCTGGGACTTGCCTGGCGGTCCAGTGGTTAGGACTCCACACTTCCACTGTAGGAGGCATGGGTTCAGTCCCTGGCCAGGGAGCCAAGACTCCCCCCGCACCGCCCCCCGCCCCCCCCCCCCGCCGCCAAAACAAACAAACAAAAAATTTACCTCTTGAAGGCAGCCGTGGCCCTTTGGAGAATTCCTTTTAAAGAGGGAGAGGTGTGTGTGTGTGTTGCATGTGCTCACACACGCATGCGCAGGAATGCCTGCCTTATTATTCCATGAGATGACCAGTTTGATACCTGTTCCCTAAGGAGGACTGTAGACTTCAGGAGGAACCAGGTCCCAACAAGGGGAGCAGGGCCCTAGGCTGGAACACCGTGCCCAAGCCCAGCTCTGTTCAGCCTTATGTGTAGTCTCCTAGCGCCTTCCCTGCTCTGCCTGGAGAGGGATAAAGCTTGAACTCTGCACATTGTGCAAGCAAGGCCAAGCACAGCCAAGCCTAAAGGGCTGCTGGGTTGTACTGGGGCACACAGTTCAGTTGTGCCTCTGGGCAGCTCCTGGGTGGGAGGACAGTCCTTAAATATATAGATCCCGAGGCTCTGGGCGCACAAGGCTGCCCTCAAGTATCTCCCTTCCTCTCTCACTGCTGGCGGGTCTGCACTGTTTCCCCTTCACACACACAGACACACACACCTATGCACGCACATTCCATGTTCTTCAAATGAGGCTTGAGTCTCTGGCTTTCCAGCTATAGGTTGGTCTCTTCTGAAGTCTTTTTCCCTTTGCTTTTACCTCAAAAGTCACTTTGAACTTTGCCTGACTCCAATATGGGGATAGTTCCCATCTCTTTCAAGCTGAGGGATACAAGGGAGAGGAGAACCCTGGTGATGGCTAAGGGGCCAGAGGTGGTGTGGAGGTGGTGGGGGGCAGGTCACCTCGGCCTCTCCATGGTGGTCTTGGGTACCCATGACACCTGGGCCTGGGACTGCCCCTGAGCCCTCCCTGCGTGGGGCACGGCCTCTCTGGCTTCAGCTCAGACCGACACTGTCTCACTGTCTTCTGTGTCTGGCTGCCCTCCACCTCCTCTGCACCCTCCAG
Seq C2 exon
GCTGTGGCCTCTGCAGCCCAGGCAAGCCTGCTCCGGCAGCAGGAAGAACTGGACAGGAAAGCGGCCGAGCTGGAACGGAAGGAGCGGGAGCTTCAGAACACGGTGGCCAACTTACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005844:ENSBTAT00000007681:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.990 A=NA C2=0.242
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]