HsaINT0103995 @ hg19
Intron Retention
Gene
ENSG00000087245 | MMP2
Description
matrix metallopeptidase 2 (gelatinase A, 72kDa gelatinase, 72kDa type IV collagenase) [Source:HGNC Symbol;Acc:7166]
Coordinates
chr16:55519516-55522628:+
Coord C1 exon
chr16:55519516-55519689
Coord A exon
chr16:55519690-55522454
Coord C2 exon
chr16:55522455-55522628
Length
2765 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTCTCTCCCCCACCCTTAGCCC
3' ss Score
7.66
Exon sequences
Seq C1 exon
TGGTCCGTGTGAAGTATGGGAACGCCGATGGGGAGTACTGCAAGTTCCCCTTCTTGTTCAATGGCAAGGAGTACAACAGCTGCACTGATACCGGCCGCAGCGATGGCTTCCTCTGGTGCTCCACCACCTACAACTTTGAGAAGGATGGCAAGTACGGCTTCTGTCCCCATGAAG
Seq A exon
GTGAGCATCCACTCTAGTCCCCAAGACTTTCCACCCCAAGCCTCCAGCTTCCCGGGCTCCCCAGTGTGCTCTTCCCTCCACACTCTCCAGGACTGGCTGCCACTGCCAGTTAATGAGCATCCCTCCAACGTCCTTCACTCAGTTCCCCCCCATCCTGATCTGAGCCATTGCTGTTTCTCTCCCACCAGTACCATGATGAACGTAGTACTCTAATTAAATCAAGTTGATTTTTTTTAAGTTTCACCATTAGCAATCATTTAGGAAGTCACAGATTTGATTTGCTAATTATTTATTTCTAATATATATTGGAGTGAACTTAGAACTATTACAATGCCCAGTGGTTCTCTCTAGAACCAGTCTTTACACTTCAGTCAAGATTGATACTTCAAGGGCATGAGGAAAGGCTTGCTGGTAGCTGGAAACCTAGCAGTGTGATAGGGAGGCAGGACTCAGACCAGGGCTGGACTCAACCTGGTTTGCGTACTCCAACTGAGGAATTTCAGCTATTGCTCCTGCCTTGGTCCTGATGCTGCCTCTGCTAATGCGTGTGTGTGTGTGTGTGTGTGTGCCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTGGGCACGGGGGCTATACTATCTGCCTCTCTTGGGCACTGTCTTTTTCTGCCTCCTGTCTAGCTTGTGTCTGCATCTCTGTGTCTTGATAAAGACTTTAGGCTTGACTCAGTATTTGTGTTTGTGTGCTTGTCAGTGCCTGAGATGCAACATTTCAGAGATTTTGAAGCCACATGGGGGAAATCTTTTAAAATGGGGTACAGATATTGACATACACACTCAATCCTTTTTAAAAATATCCTTGACACACTTAATAGTCATAAATCACAAAAAGACAATGTAACTTCATACTCTATGAAGTCATCATATTTGATAATTCTGCAGATTGAAAGCCCAGAAAACCTGGCGAAAATGGAAAAAAGTCTAAAAATTTTTAACACTATCTTCTTTCCCATGTCACAAAGACTCTATAGTCTACATAGACTAAAGACTGTCTTTTTGTCTGTAATTTTATGTCTGTGAATCTCCCTAACCCCACTGTAACTGAAAACTAAGCACCAACCATCTTGACAGAATGAAAGAAACAAAGAGCTAGTTAATTCCCTTCCTGTTTATGCTTTTACTACCAGAGCTAAACTTTATATTAAGTAAGAGTTTAAGCCATTCACCATTAATAAGTCAGACATTTTGAAATAAAAATATTTTTTGTATCTTGCGTTTCCCGGTAGGGATTACATGTGGCGTTAACCCTTCCCTGTGTCACCCCTCTGATAGGAACAGAAAGCTTTGGTGATAGTTAGATGTGGAAACAGCTGTATTTCATAAATTTGGGAAGGGTTATTCCCTGCATTGGACATTAGCCATTTACTTTGTGCTTAGCCAGATGCAAGTACGCACAACACGCACGTGTCTGGGTCTCGAGGCAGAGATTGTTGTTACTCAGCCCCTGCTGATGGCTGAGTCAGTGTCTGATTCTTGCCATCCTTGTCAGGGGAATTTGGGAGGAGACAGGGGCTTCCTGGGTGGTAGAAATGAGAGGTCAGAGGCAGGGGGCTGGCATTGGTCGAAGTTAACGCTTTGCCTTTCTCAACTCTGAGGCCACTAAGGTATCTGGACTCAGTCTTGCCTTTTCTCTAGGTGCCATTGTTTCTGGCATTGCAGGACAAGGTCTTTTGGTAGAGAGGGGAGTGGTGAGGATACAGGGCCTCGAGTTCTGTGGTGGGAGGCCAGGGACTGGGCTCCATTCCGGCCATGGTGGAGTTAACGGGGGCTGGTGAGGTCACCTCTGGCGCCGTTGTGCACAGATGGTCCTTGTTATGGACTTGTGGTTTTGCTGGTTGGCAATTCCAGAGACACCATTTTTTAGCTTTGGGTGGATGAGGGGAGGATGGGGAGAATCCAAGACAGACAGGCCAGGCTCTGAACCCCACTCCCTCCCCCAACTCTCCATTTATGGCCCCTGTCTTGAAGATGTCAAAGTAGGAGCCCAGAGTGTTTAGTAAAAGGGACCTGAAGGCACCACCTCCCTCTCCCTCCCTCCTCCTCTTCATTCTTTCTCTCCTTCCTACAGAGACTGCAACAAGGCCATCCAGGAAGGGGCCTGGGGTTGACAGGAGGTAAAGCAAGCTTTCTGTGTATGCGTGTGCACGCACACACACATATATGAGAGTGACAGACTAAGCAAGAGAGATTGAGATTAGTGTGTTTTGTAGTTTTTAGTTACAACCTTCATTCACTTCTTTCATTTCTGTGACCATGAGCAGTTTGAGAACCATCTTTGTCCTAGCCTTGATTTCTCCACCTATCAAATGGAGAGAGATTCTCGTGGTCCTGCCTGCCATGACTGATATATTCATGTCATACATCATTATTACATGAAATTTGCATGGTACAGGTGTGGACCAGGCAGAATGGACAGTGCCCTTGGGGCTGAGGCAGGGTTCTAGAAGCCCTTGCTGTGTGCCAGGTGTCAATCATTTTGTTGTTGGGTGGTCCACAAGGTCCCACGGGAGGGATTGGGATAACCAGGGAAGCAGGGGTTCTCTCTGGGAGCTCAGAGAAGCAGCTCCTTACCAACCAGTAGAGATGTTTTCTTAATATTTTAACAATGCATCAACTTCACTGGTGTGAACCGGCAGGTGGGCAGCCAGCCAGCCCTGTGCCCATGGAAGCATGTCTCATTCACATCCTTCCCTCTCTCCCCCACCCTTAG
Seq C2 exon
CCCTGTTCACCATGGGCGGCAACGCTGAAGGACAGCCCTGCAAGTTTCCATTCCGCTTCCAGGGCACATCCTATGACAGCTGCACCACTGAGGGCCGCACGGATGGCTACCGCTGGTGCGGCACCACTGAGGACTACGACCGCGACAAGAAGTATGGCTTCTGCCCTGAGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000087245-MMP2:NM_001127891:5
Average complexity
IR-S
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=PD(31.3=81.0),PF0004014=fn2=WD(100=72.4)
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:
Associated events
Other assemblies
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
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)