BtaINT0101761 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021945 | NID2
Description
Bos taurus nidogen 2 (osteonidogen) (NID2), mRNA. [Source:RefSeq mRNA;Acc:NM_001102065]
Coordinates
chr10:44899081-44899797:-
Coord C1 exon
chr10:44899668-44899797
Coord A exon
chr10:44899253-44899667
Coord C2 exon
chr10:44899081-44899252
Length
415 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
TTGCCTTTGTTTTATTTCAGGTC
3' ss Score
11.94
Exon sequences
Seq C1 exon
GGCTCCATAGTCGTGGGAATTGACTATGACTGCCGGGAGAGGATGGTGTACTGGACAGATGTTGCTGGACGGACAATTAGCCGCGCCAGTTTGGAACCAGGAGCAGAGCCCGAGATGGTCGTTAACTCAG
Seq A exon
GTCAGCAGCTCCACCCAGAAGACACTTCCCATTTCATTTCATTCTACTCAGTCCAGGTTATTTGCTTGCTTTGTGCCTAAGTCTCCCATCTACCTTCTAGATAGGACTCTGAACAGGAAGGGTTTGTGTAGGAACTCAGGGAGTGGCCCCAGCCCTGGGGACGCTTGGTGCCACCAGGCTTGGGGTGGGGGGTGGGTCTTATGAGGGCAGAGTGAACATGAGGCTAGAGTGAACATGAGGCTAGAGTGAACTAGACATGGCAGGAAAACCACAAAGGACCTACCCCTCTATTCAGTCTGTTTTTTAGAGACTCTCAAGACCTTCCCCTTAACTGTGGGAACATAGTAGACCTCTCTGCTTCAGATTCTCCTTTCACAGCTGCGGTTGCTTCAGTCTTGCCTTTGTTTTATTTCAG
Seq C2 exon
GTCTAATAAGCCCCGAAGGTCTTGCCATCGACCACTTCCGTAGAACAATGTACTGGACGGACAGCGGCCTGGATAAGATAGAGAGGGCCAGGCTGGATGGCTCTGAGCGTCGGGCCCTCTTCCACACGGACCTGGTGAACCCTCGTGCCATCGCTGTGGATCCAATCCAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021945:ENSBTAT00000029257:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PU(71.4=68.2)
A:
NA
C2:
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)
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:
GGCTCCATAGTCGTGGGAATTG
R:
GATTGGATCCACAGCGATGGC
Band lengths:
297-712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development