BtaINT0101758 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021945 | NID2
Description
Bos taurus nidogen 2 (osteonidogen) (NID2), mRNA. [Source:RefSeq mRNA;Acc:NM_001102065]
Coordinates
chr10:44902424-44905836:-
Coord C1 exon
chr10:44905717-44905836
Coord A exon
chr10:44902646-44905716
Coord C2 exon
chr10:44902424-44902645
Length
3071 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TTTTGTCCACATCTGCTCAGAGC
3' ss Score
5.76
Exon sequences
Seq C1 exon
ATGTTGACGAATGCTCGGAAAACAGATGTCACCCCTCGGCCACCTGCTCCAATACCCCTGGCTCCTTCTCCTGCCGCTGCCAACCTGGATATTACGGGGATGGATTTCAGTGCACACCTG
Seq A exon
GTAAGGTCTGGGAGGCCTCCCCATGTAACTTTGTATCACTTAACTCTGACTTGCGGAGTGCAGGAAATAGTCTGAAGTCTGTTTTAATCTCAGTGGGGAAAATAAGTATGACCCTTGTAGGTGGACCCCGCTGGTTTACTCTAAGCTAGTAACCCCAGCCCTCTTCCCAACATGTTGATGGGGAATCACTCTTGCTCCTGCCACCTATAGAAGAGGTGCAGGGATCTGTTTTGTTCACCTTAGAGACCCCAGATGCTGCTGATGAACTTGTCTGTTATGGTCTAAGCACTCCCCGTCTGCATGGGGCGTGGGGTGTGGTTTCCAAGCACTCAAGAGTTCATGCCAACTGTAGGTTGCCAAGGCAGACTGCTGCTCCTTTGTTGAGTTGTTCAAAGATAGGAAGAATTTTTTCTTTTAATACAGAAGAACTTTATTAATGAAACAGCACTGGTTTGGTATCATTTTAACCAAAATAATTCCTATACAGATCCATGAGCTCACTATTCAAAGATCACTTTTTACCACTGAGGAAGGTTCCATAAGTACCAGTCTTGGCTTTTAATGTACGAGAGTAAGAAATGGAAAATTACTTCATTTTTTAAATTTTGATTACAGTTTTGATTTTGATCGCCAGTTGCCAGTTTTGATCCTTTCAATAATATGAATTATTATGGCCAAGACATTAGTGCTTCTAAGATTCATATAAGTAAACATTGGTAATGTTTGCTCTAGATGTCTATATACCCTTGCTTCCACTATAACATTCCTTTTTCTTTCCCCTGTTTCTGGGGAAAGATTTTTCAGGTCCCCGCCCTGCCTCCCCCCACCAAAAAAAAATACAGAGAAATTCCGTTTCACTCATGCCTAGTCTTTAAAAAGTCTTGATTAAATTCCAGCTGGGATTTGAAGAAATCAGATGATTGGGAGGTGCCCTAACAGAATGGTTCAGAATCCTGTTAAATTTATTAAGATAGGCATGTATTAAGGAGAGTGATCCAGAAGGGAGCCAAGAGAATGAGACGTTAATTACAGAAAGAGGGGCACGTTCCTTTGTGCAGACTCTTTCCCATGACCAGGCCTCTCTTGGTGCTGGTTTGGCCTTGGTCGCCATTTCTGACTAGTCTCATCTGCATAATAGGGCCTGCTTTCAAGGATGAGAGAACACTCTGTGCCCAAAATTCAAAAGTATTTAAAACCCTGCCAGCCAGAAAGAGAAATAAATCCATGATTGGATTGAGAAACAGCTTGAAATAGTAAGCAATGACAGATGCCCACGTGTAAGTGACGTGAGGTACTCCTTTCCCAGAGGCTGACTGCTGTGTGTGCCTTGTTGGGTGGTCCCCCGAGAACTGATGATCTGAGTTTGGCATGTGGACCAGGGGTGATCCTGGCAACTTCTTCAGGGAATCCCACCCGGTGACAATGGCGAGTGTCTGAGGAAGTAGTATTTCCCTCTCTGGGTCCTGAGACACATCTGGGTGAGGAAGTCAGTCTTTTTTCTCCATGATGTTTTAAAAAGAGCTTTGCTTCCCGAGGGTTATGAGCTCCAGCAGCAACCTGGAGCTTGCCCCAAACATTGTGAGTCTTGGAGTTGTGCTCCTTTGGTTGGAGCTCTGAAGGTTTTATTCACCATCTTCTGGCTTTCCAGGTGCTCAAATGTAATGTTTCCAGCTGTTCTTTGAACTCACTGGAGGTTTTGACCAAAGGAGGGACATGAGATGACTTTATTTTTTTTTTTAAAGGGACTCTTTCTGGCTGCTGGTTGAGTTTACAGCAGGGCAGGGGGTGGGGAGCAGGAAAGATGATGGAAGCAGGGAAGCCAGTAAGAAGGCTAACATACGTAGTAATTCTGGCACGAGATGACAGGGGTAGATGTGGTAAGATGTGAAGATATCAGCTGACATGTTTTGATATATCAGATGTAGAGTGGGAGAAGGGAGTCAGGGTTTAGTGAGTCTGAGCAATGGAAAGATGGAGATGCTGTATAATGCTATGCAGAAGTCTAGGGGAGAGAAGCTTTGAGGGGAGAAAGCCCAGTTTTTGTTCTCCTCTGAGATCTGTTACACATCCACATGGTGATAGAAGTAGATACTTGGCTGTGTGATTCTGCAGGCTCTGAGTTGCAGGAATTAATGAAGGAAAAATACCTTCTATCAGTACTTAAATTCCTGTAGGTCGTCCTATCTTAGGAGACTGTCAAGTTAAACCACGTCAAGCAGAGTCCTCTCAGATAGAGAACTGCTGTATCTGGGACAGAGCCTTGGCAGCCCTGTAGAAGCAGTCTGGGAAAAAGCTGCTGGTAAGGAAGCTGCTCTGCCACGGAAGCTAACAAGAGTTTCAGCATGGTTGTGAGGAAGGAAGGAGGAAGGATGGGGAAAGATGCTGGAGAAAGGGAGGGACCAAGCAACACGACGGGAAGCTGGGGCCTCAGCTTTGAGATAAACCCAGGGCAGGGTGGCCAAAGGACTTCAAGGAGCTGGAGTGTCGCAGTCTGTATCAAGTTGTTTGCCACCAACTCTATGATCACACATACTAATTATAGTCAGTTTTACTCAATAGTTTTCCAGTGGACAGATACGTAGGGCCACACGTAAGCAGGGCATTTGGTAATACTTCCTAAGACACACCGGCCAGTCTCAAGACAGCCCTCTCAGATGCAGGTCCCAGAGTTTGAAACAGAAAGAATAAATATTGGCTTTAAGCATCATGTAGGCCACTGAGTCCCCAAGGAGAGTCCCCAGGAGTGCTGTTAGCAGAGGCCCCTTCCCAGGCTGAGCAAGGCCCGCACCCCAGATGTTACCGCCTCTTGTTCTTTCCTGATGTGGCTGGGTTGATGACATTCCTCCTGGCCTGAGGGTCACAGGAGCATCAGGACAACCCCTTCTCCTGATCCCCAGCAGAACCTCCTGGAGCACTTTGCTGCTCAGGGCCAGAATCCAGGGGCTTGGCTGAGGCCTCATTATGGACATGAGGAGGAAGAAGACGAGGAGGCCAGGCCTGGGGATCTTGAACCACATGCTACAGTCTGTCCTTGGCTCACACTCAAAGGCTTTTTGTCCACATCTGCTCAG
Seq C2 exon
AGCCCACCCAGAGGCCCCGGACCGTCTGTGAGCGCTGGAGGGAAAGCCTGCTGGAGCACTACGGGGGCACCCCCAGGGACGACCAGTATGTGCCTCAGTGCGACGACCTGGGCCACTTCACCCCGCTGCAGTGCCATGGCAAGAGTGACTTCTGCTGGTGTGTCGACCAGGACGGCAGAGAGGTGCAGGGCACCCGCTCGCAGCCAGGCATCACCCCTGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021945:ENSBTAT00000029257:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.227
Domain overlap (PFAM):
C1:
PF126622=cEGF=PD(13.6=7.3),PF129472=EGF_3=WD(100=82.9)
A:
NA
C2:
PF0008613=Thyroglobulin_1=WD(100=88.0)
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:
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]
SPECIAL DATASETS
- Pre-implantation embryo development