BtaINT0101749 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007244 | NID1
Description
nidogen 1 [Source:HGNC Symbol;Acc:HGNC:7821]
Coordinates
chr28:8733209-8734753:-
Coord C1 exon
chr28:8734641-8734753
Coord A exon
chr28:8733669-8734640
Coord C2 exon
chr28:8733209-8733668
Length
972 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
CTTACTTCTGCCTTTTCCAGGTC
3' ss Score
12.37
Exon sequences
Seq C1 exon
GAATTCTGTGGTCGCTGTAGATCTCGCTGTTTCCAAAGAGACGGATTCCTTCCACCCCCACAAGCAGACCCGGCTCTATGGCATCACTTCCGCCCTGTCTCAGTGTCCTGAAG
Seq A exon
GTAACCCACCTGTGCTCTATGTAGTCAGGGGCTGGGTTGGCCCCTGGGGCTCAGAGCCCACACTCTGGCTGCCCCCTATGTGGCCTCTGGTAGCCCTGATCACAGGGCAGGTGAGACCTAGTCCATTCCATCAAGGGTCTTCATTAATTAGTGGGTAAATCAGATGAATCAACAGAAAATGTTAGGGAATGAAGTGGATAGTGGATAAGGGTGAGGAGAAGTATTGACTCTTGGAGTGGGTCTAAAAGTATGCTGTCTTCAGGCTCCAAGGAGGAAAAGCAGTGTTAGGGTCTCTCCTGCTTTAAAAGTTCATCCATTTGGCCAGACAGCAACAACAATAATTGATAGCAATAATAATTGCAAACATGGATGTGATACTTCCTGTGAGCTGGGTACATCCCGTGTATTAAAAGTCACTACGTGCTTTGTATCCACTGGTTCACTTAATCCTCATAGCAGCCCTATGAGGTAGGTGTTATTATTTTGCCCACTTTATAAATGAGGATACTGAAACCACTTGCCCAGAGTCACACGGTCACTTCCAGTGCTTGTGGCAGCAGACATGGGGGTAAGTTAGGCAGCCTGGCTGCAGAGTCTATGCTATGGCTCCCTCCTTCCTGGCTTCCCTCTTGCCCCCTAGGGAAGCGGCCAAGCTGCATAGAAAGCATATTCTGCTTTAAAATTCCAGCTCCATGTTATGACCAGACCTGAAAAACCCCCCTGAGCTCTGCTAATAGCTTCGATGGTAAATCTGTATATCCCCCAGATCAGGAATCAAGGTTTTTGCACATTTGGCAAATCCTTAATGATGAGGAAACAGCTAGGAGATAAGCTGAGTTAAATTTTCTATACAGCTTCCTTGTTCTCCAGGACCCCCCCTAAGCTTGGCCTCCCAGAGACCAAACAGGGGGCTAGTATGGAGGTCACTCTCTCAACTGATCGAACCACTGAGCTTACTTCTGCCTTTTCCAG
Seq C2 exon
GTCACAACTACTGCTCAGTGAACAACGGTGGCTGCACCCACCTCTGCTTGGCCACCCCAGGAAGCAGGACCTGCCGTTGCCCTGACAACACCCTGGGAGTTGACTGTATCGAGCGGAAATGAAGAGTTCCTTGTGTGCTCTCCAAAGTATTTCACAGCAGCGCCCTTCTTGAAAGGGTCCAGACTGAAAACTGTCTGACCTGGTGGCTGAATGGCCACCAGGCCCAGGTCCAACCCAGCCTGAGCCCCAACAGCATTGCCTTCATTGTTCCCCAAAACATGCCCTCAGCTTCTGGAATGGGAAAGCCTCTTCTCCTACACAAAGTCTCCCTGACCCTAACCCTCAGACTAGCTTATACAGCCCTGAGTGAGGATTATATGCCCCATCCTTGTGCTGGAAACTGGCCCCAACCTTCATACCCCCATGGTGAGCAGAGCTTCTCATGGCCTGAGCTGCCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007244:ENSBTAT00000009531:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=75.6)
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:
GATTCCTTCCACCCCCACAAG
R:
GAGGGCATGTTTTGGGGAACA
Band lengths:
356-1328
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]