BtaINT0093947 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019267 | MMP2
Description
Bos taurus matrix metallopeptidase 2 (gelatinase A, 72kDa gelatinase, 72kDa type IV collagenase) (MMP2), mRNA. [Source:RefSeq mRNA;Acc:NM_174745]
Coordinates
chr18:23834865-23837789:+
Coord C1 exon
chr18:23834865-23835038
Coord A exon
chr18:23835039-23837615
Coord C2 exon
chr18:23837616-23837789
Length
2577 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCCTCTCTCCTGCACCCCAGCCC
3' ss Score
7.24
Exon sequences
Seq C1 exon
TGGTCCGTGTGAAGTACGGGAATGCTGACGGGGAATATTGCAAGTTCCCCTTCCGGTTCAACGGCAAGGAGTACACCAGCTGCACAGACACAGGCCGCAGCGATGGCTTCCTCTGGTGTTCCACCACATACAACTTTGACAAGGACGGCAAGTATGGCTTCTGCCCCCATGAAG
Seq A exon
GTGAGTGTCCTCCTGGCTTCAGGCCTTGACCTTCCCAGCCTCTATACTCCTCAGGCTTGGCACGGCCAATTAGCCAGTGTCCCCTCCACTTCCTTCAGCCCCCACATCCCAATTTGAGCCATCACTGTGCCCTTCTCATCTGTTCCATTATTCACTTAATACTTTCATTTATTCACTTCCTTTTTTAAGCTTCACCATTAGCAATATTTTTGAACTCATTAGTTTGATGTGCTAATTATTTTTTCCAACATACATTAAACTGAACTTAGAATGATTAAAATGCCCAATGGGTCTCTTAAGAACTACTTTCTACCCTCTAGCAGAATTGGAGGTTCAAGGGTTGAGGAGAGCCTTGGGATGAATCAGAAGCCTAACAATGGGATTGGTACTGAGGCCAGTATCCAACCTGGCTTGGGGACACCGACCTGGGGGATTTCAGCCATTGCTTCTGGTTCTGATGCTGACTCTGTGTGTCTGGGGGCTGTTCCATCTGCCTTTCTTGGTCTCCATCTATCGTGGCTTGTGGCTGCATCTCTGGGTCTTGGCAAAGGCATCAGGTTTAACCTAGTATTTATATGTGTGCTTTTGTCAGTGCTTGAGACATAAGCTCTAGATATTTTGAAACAATGTAGAGGGAATTTTTTTTAAAGGGTGAGGGTATTGACATATACACTCAGTTCTTTTTAATTTATCCTTGACGTACTTCATAATCAGAAATCATGAAAGGACAGCATATATAACCTTATACTCTTATCAAGTCATCATGTTTAATGATTCAGGAGGTGGAAAGCTGAGAAGATGTGGAGAAAATGTGAAAAAGTCCAAAACCTTTTAAAATACCTTTTTTCTTTGCTAGTCCATAAAGACTCCTTGATCTATATATACCTCTGTCTTCTTAGCTGTAATTTTACACGTTTGTGAATCTTTCTGACGTTATTGCAACTGAACCCTAAGTACCAGCCCTGTTGACAGAAGGAAAGAAACAAAGAGCTAGTTAAATGTGTCCCTGTTTACGCTTTTAGTACCCAAAACTCATGCAATACTTTTTTATTAAGTAAAGTTCAAGCCATTGGCCATTAATAAGTCAGAAATACTTAAAACCAAAAATATTTAATGTATCTTGCATTTCCCAGTAGGGATTTGGATGGCGTTAACCTTCCATGTGTCAACCCCTGTGTTTAGAACAGAATGTCTTGATAATAGAAGGGAAACAGCTGTAATTCATAAGTTGAGGAAGGGTTTTTCCCTGTTTGGGACATTAACCATTGGCTTGGTCCTTAGCCAGATGTAAGTACGCACGGCATGCACGTGTTTGGGTCTTGGGGCAGAAGTTCTGGTTACTCAGCCCCTCCTGACTGCTGAGTCAGTGTCTGCTTGTCTCCATCCCTTTGGGGGCAGGATTTGGGAAGAGATGGGGGCTTCCTGGGTGGTAGAAATGCTGCTGATGGGAGGCCAAAGGTGGAGACTGGTCTCCATTGAAGTTAACACTTCGCCTTTCCCATTTCAAGGCCACCAAGGCAGCTTGTCTTCTTCATCAGCCGCCTTGTTTCTGGCGTTCCAGGAGAAGGTCTCTGGGTTGGGGAGAAGGGAGCAGTGAGGGTAAGGGGCCCTGAGACTTGTGGGGGTGGCCAGGGACTGGGCTTGATTCTGGCCATGGTGGAGTTAATGGGGGCTGGTGAGGTCACCTCTGGCGCCGTTGTTCACAGATGGTCCTTGTTACGCACTTGTGGTTTTGCTAGTTGGCAAATCCAAAGACACACCATTCTGTAGCTTCAGGTGGATGAGGGTGCGGGGCAGCAGGGGGAGAACCCAAGATAGACAAGCCCAGACTCTTAATCCCACTGTCTCCCCTGAACCCTCCAGTCATGGCCCATGTCTTGGGGTGGTCAGAGTGGGAGCCTGGGGTGTGTATTAAAAGGTTCGCAAAGATACCACCTCCCCCTCCCGCCCTCCCTCTCCTCTCCCTCCTGCAGGGACCACAGCATCTGGGAAAACGCCTGGGGTTGAAGGGAGGTGAAGTTTTCTCTGTGTGCGCAAGCGTGAATGACAGAGTGAGGAAGGCAGAGATGGAGATCAGTGTGTTTTGTAGTTCTCAGTTACAACCCTCATCCATCTAGGTGATCATGAGTAGTTCTGGAGCCAGCTTTCTTCAAACCTCAGTTTCCCTCTCTGTCAAATGGAGAGATATTGCCATCCTGCCCACCTTGGATGATATATTTAGCAATCTGCAGGGATGCAAGCATCAATCAGGCAGAGTGGACTGTGACCCTGGGGCTGGAGTAGGGCTCTGGAGGCGCCTACCATGTGCCAGGGGTTAACTATTTTATTGCTGAGACAGAGGGGGGCGATCCATAAGGTCCAAGGAAAAGGCTGGGGCTGGCAAGGGAGGAAGGAGTATTTACCCCCAGGAGTTCAGAGAAGCAACAGTTTACCAACCAGTATAGATTTTTTAAAAATATTTTATCAATGCTATGACTTCCCTGGTGTGAGTGGGCAGGTGGGCAGCCAGCTCTGCATTCACACAGGTGCCCAGCGGATGCTCACATTCGCACCCTCCCCCTCTCTCCTGCACCCCAG
Seq C2 exon
CCCTGTTCACCATGGGCGGCAATGCCGACGGACAGCCCTGCAAGTTCCCGTTCCGCTTCCAGGGCACGTCTTACGACAGCTGCACCACGGAGGGCCGCACGGACGGCTACCGCTGGTGTGGCACCACCGAGGACTACGACCGCGACAAGAAGTACGGCTTCTGCCCGGAGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019267:ENSBTAT00000025657:5
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:
PF0041319=Peptidase_M10=FE(17.6=100),PF0004014=fn2=WD(100=71.2)
A:
NA
C2:
PF0041319=Peptidase_M10=FE(17.6=100),PF0004014=fn2=WD(100=71.2)
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