BtaINT0101762 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021945 | NID2
Description
Bos taurus nidogen 2 (osteonidogen) (NID2), mRNA. [Source:RefSeq mRNA;Acc:NM_001102065]
Coordinates
chr10:44898277-44899252:-
Coord C1 exon
chr10:44899081-44899252
Coord A exon
chr10:44898435-44899080
Coord C2 exon
chr10:44898277-44898434
Length
646 bp
Sequences
Splice sites
5' ss Seq
GGGGTCGGC
5' ss Score
-2
3' ss Seq
CTCCATTTCATTTACCACAGCAA
3' ss Score
5.52
Exon sequences
Seq C1 exon
GTCTAATAAGCCCCGAAGGTCTTGCCATCGACCACTTCCGTAGAACAATGTACTGGACGGACAGCGGCCTGGATAAGATAGAGAGGGCCAGGCTGGATGGCTCTGAGCGTCGGGCCCTCTTCCACACGGACCTGGTGAACCCTCGTGCCATCGCTGTGGATCCAATCCAGGG
Seq A exon
GTCGGCTGGGCTTCCCTAATTCTCCTGTTACCTGTTGACCCTCACTTGAAGCCCTTGGGTTCTAAGTATGGTGTAAGGAGGGTCAGAACATGAGCATAAAAGTGCACGTTAATTTAACAGTATTCACAGAGGATCTACTAGGTGTCAGGCACTGTTCAGGCAAAGACAGGGTCTGTCCTTTCGTGAAGTCTAAGTTCTACTACGTTCTAGGAAATAAGACAGTAAACTAATGAATAACAGAATAACAAGGAAATTACTAAGCCTGTGATGTGGTATGTAGAGAATTCAAGAGTATGTGAGAGAGACTGGGGGCTACTTTGGATCAGGCCAAGCCTGCGACTTCAACTGGAATGAGGTGGGTCTCCCTCCAGCAACACATTAGGAAATCCCAGTTGTTAAACCCATAGTGGGGTTACCTGTGTAAAATGGCGCAAGTAAGCAAAACTCAGACACCAGACGTGTTATTCCTCTGGCCCCATTTTCACAGTGGCAGTGGTTAACAGAACAGTTTCCTGTCTACAATAATTGCTAAGGTCATCAACTGGGACATATAACCTTCAGCTTTAACTTTCAGCAGTTTTTGACTCTGAAATTTGGATTCTATGCATTGAGGAAGGTTTATCTTTCTCCATTTCATTTACCACAG
Seq C2 exon
CAACCTGTACTGGACAGATTGGAATCGAGAAGCACCTAAGATTGAAATGTCGTCTTTAGATGGAGAAAACAGAAGAATTCTAGTGAATAAAGACATTGGACTACCCAATGGTTTAACCTTTGACCCCTTCTCCAAACTGCTCTGCTGGGCAGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021945:ENSBTAT00000029257:16
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=0.019
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PD(26.2=19.0),PF0005812=Ldl_recept_b=WD(100=70.7),PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=79.6)
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:
GTCTTGCCATCGACCACTTCC
R:
CCAGCAGAGCAGTTTGGAGAA
Band lengths:
302-948
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development