BtaINT0128993 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021318 | SCAMP5
Description
Bos taurus secretory carrier membrane protein 5 (SCAMP5), mRNA. [Source:RefSeq mRNA;Acc:NM_001166565]
Coordinates
chr21:34093332-34096066:-
Coord C1 exon
chr21:34095938-34096066
Coord A exon
chr21:34093489-34095937
Coord C2 exon
chr21:34093332-34093488
Length
2449 bp
Sequences
Splice sites
5' ss Seq
TGCGTGAGT
5' ss Score
7.55
3' ss Seq
ACATGCTCCTGGGTCTGCAGTGA
3' ss Score
4.67
Exon sequences
Seq C1 exon
AGAAAGTGAACAACTTCCCACCACTGCCCAAATTCATCCCGCTAAAGCCATGTTTCTACCAAGACTTTGAGGCTGACATCCCTCCTCAGCATCTCAGCATGACCAAGCGCCTCTACTACCTCTGGATGC
Seq A exon
GTGAGTGCTGTGGGGTGGGGGTGTTCCAGAGCTGGGGAGCGGGGGAGCGGGTGCTGGCGGGTGCTGGGCACGGGGATGGGGTGCCCCCAGGCCTGGGTCCTTCAGCCTCACCTGCAGCATCTGTCCCTGCCTGACTCCTGCAGGCTCCTCTCCTGGGCCAACTCCCCAGCTAGGCCTCAGTTTCCCTCACTTCCCATCTAGCCTCTCCTCATGCCCCCGTCACAGAGCAGCCAGGTGCGTGTGAGGAGTCTCTGCCTGCATTGCAGTTCATTTATCTTCTCATGGGAGTGGTTTTCCAGGGAACCTCTGGTGATTACCTCAGGTGTCTGGATTTGGAGAGGACTCCTCCCCTCAAAGCCTCGTTTTTCTTGCTTTCGCTGGAAGATTGCTCCAAAAGAATGTTCAGTTGGGATATAGTGACCAGGCTGGGCTGGTCACTCGACTTCCCAAGAGGCAGCTTCCTCATTTGTAGGAAAACGGTACTGGCTCAGTGATCGCCGTGCCTCCATGTGGGTCTGTGTTAAGAGCTCGAGTTCTCATGTTCTAAGGTTTTGAGGTTGAGTTAAAGGCTCCAGTTTCTGATGGCCTGTGATGTTAGAATAATTACGACAAGGGTACTAGATCAAATGAGCTGGAGAGAGATGGGACTGTGAAGAGAGATGTAAACCAACAGAAAAACAGGGTGAAAAAAAAAACTAAAACTGAAAACAAAACAAAATAAAAACAGGTTAATGACTGTTCTATGTAAAGAGCAAATAAAATCAGTGAGAACACCATGATTCCAGGAAATCTGGTGGTAATAAATAGGGATGAGGAAACACAGCTGAAACTCACAGAAAGAAATGCTTACCCTCATTGTGAGGGGCCCTGAGAGGGGTGTACCTCTCATGTGACAGTATTGTCAGGCCAGACTTGGGGAGCGGTGGCCCTAGGCTCTGGGAACTCTGCCCCTGAGAAGATCTCATCCAGAAGCTGGATTTAAGGGCTATAAATATCTTCCTAAGTCCTTACTAGGTGCTGGCCAGATGCTTTGTTCCCAAGGAAATGTATATAACCCTTGAGATGCTTAAAGAGTTCTATTCAAAAGCCAAGCCCATAGATGCCTGGCTGTTTGAGGCCAAGATTAAGCCTGCCTTCCTTTGTTTATTCAGCAAGTGTTTTTTTTTTTTTTTTTTTAATTTATTTTATTTTTGGCTGTGCTGGATCTTCGCTGTGGCGTGAGGGGTCTGCGGCATGTGGGGGCTTTTTTTCCCCAGTTTGGGTGTAAGGGCTTCTCGTTGTGGAGCATGGGCTCTAGAGAGCATGGGCTCAGTAGTTGCCCTGTGGCACATGGGATCTTAGTTTCCTGGCCAGGAATTGAACCTCTGTCCCTTGCGTTGGAAGGTGGAGTCTTAACCACTGGACCACCAGGGGAGTCCTTGTTCAGCAAGTCTTTGTGGAGCCTTAAAGGGACTTGGGCTAACAACATTGGAGGAAGGGAGCAAGTACCCTTATGTCCAATGAGCTGGGTGTGTGTTAGTGCAAGCATCAGATGAGGAGACTTGAGGTCCCTACTGGCTGTAACTCAGGGATACAGTGATTCAGAGGTTCAGTTATAGAGTATGTAAGCATGGAAGAGAAGGAACCTGGGTCTCACTCTTGGGGAACCTCTAGTTTGGTTGATGGGCTGGGATTTGTCCTTTGGGAAACATGAGAGCACCCAAGTTGTTAGGAGGTCAGAGGGATGGGAGGTGAATAAGACTGCAGCAGTGAAAGAAGACTTCTTGGAGGAGGTGGTGTAATAGGGTTAAAGAAAGACTGAGATCCCAGCCATTGCTGCCTGCCCTATATAAGTGTGGGGTGGATGGTATGACGACGTAAAGAGACGTTTCCTTTTCCTTTCCCCTTTTCATGCCCTACCTTGCAAGACAAGATGGAAGATGGGTTTCCTGTGCCATGGGCTTGGTGATTGCTGTGGGTCTGGGAAGGCCAGGGGCTGCGGCTATACTTATAAGAAGAGCATTTCTCTCAGGTTGAGGCTTTGGGGCTCTTCAACAGGACTTGCTAGGCTGAGACTCTGAGTTCCTGATCGGGGGAGACTCTTTGTTCTCTGGAGTTCTCAGATCCCCAGGAACGGGGGTGTGTGTGGGGGGCTGGGCTGAGCTCCCAGTTATCTTTCTTACAGTCTATACCCTCTGTGTGTGTGTGTTATGTGTGCATCTTATGTATCTCTGTGTGTGTATTGGCTGCTGTGACTTGTGGGTGCGCACCTGTGTAAATGTGGTTTGCATGTGTGTTTGTGTATGTCTCTATCTTTCTGGGCTTGGGCTGTCTGCCTGTGTCCGATTGTGGGTCTGTGCTGAGTTATGGGTATGTCTGTGTGTGGTGCTTGTGTGTTCTGCGTGGGCCTTGGTGTCTGTGCGTGTCTGCTGTCCGTCTGGTGTCTGTGTACATGCTCCTGGGTCTGCAG
Seq C2 exon
TGAATAGCGTCACGCTGGCCGTGAACCTGGTGGGCTGTCTCGCGTGGCTGATCGGAGGCGGGGGAGCCACCAACTTTGGCCTCGCCTTTCTCTGGCTCATCCTCTTCACACCCTGCTCCTACGTCTGCTGGTTTCGGCCCATTTACAAGGCCTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021318:ENSBTAT00000065890:3
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=PU(23.7=95.5)
A:
NA
C2:
PF041448=SCAMP=FE(29.4=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:
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]