MmuINT0040269 @ mm9
Intron Retention
Gene
ENSMUSG00000026042 | Col5a2
Description
collagen, type V, alpha 2 [Source:MGI Symbol;Acc:MGI:88458]
Coordinates
chr1:45494309-45495728:-
Coord C1 exon
chr1:45495715-45495728
Coord A exon
chr1:45494342-45495714
Coord C2 exon
chr1:45494309-45494341
Length
1373 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTTTTAAACAATCTTCCTAGGGA
3' ss Score
6.53
Exon sequences
Seq C1 exon
GTAGAGGAAGAAAG
Seq A exon
GTGAGTTTTACTTAGCATGATTCCTTTTTCATAGGCAAAATTCTTTCTTAGAATATCTACATGGAACTGTGCTCTGAACTCTATGGAAACATAGCTTAAATATCAATCATAGATGCCACCCACTCATTGGTATTTAAGGATGTCACTGTAGTTCTTTTTTTCTTTTTCTTGAATGTGACAGGTTAGGAATACAACAGTGTGGCTTTGATTAGAAAAACAAGAGTGCATAAAAATGATGGGACCTGTCAGGAAGTTAACTCTGGCTATATCTAGAGTGTTGAGTGAGATAAGGTCTTCTGAGCATTTCCTTTGCTTCCAAAATTCTCTGTTGCTCACAGATTTGGCTTCATAGTTAGGTGAAGTAATAATATATGTGAGAAAAGAAATTAAGTAAATTCAAATGCATTCCTCCCGCAATCCTTGCTCTTAGAATATATGTGTTGAAGTCATACTTCATTTCCCCAGTTGCTTAATGGAATATAACATTTTATAATGTGTTAATTGATATTAATGAATTAATAATGATGGGTTCAAGAAGATAATCAAGGAAGCAAGATAGGCAGACACAATGATGGCATTAAGGAGATCAAAAATCACAGAAAGACAAATACTGAGACAGGTTAACACTAAATAGTATATGGGGAAATACACCTCAGAGCACACAATCACAAAACCAGTATATATACTTCAAGAGTCCGTAGTTCTACTATTCAAACGAAAAGCCACTGCCGTCTGCTTTGCTTGCTGTGCCTGCACTGAGGGATGTAGACTGGCCTGGCAGTATCTTACAATGCAGTTCACATTTTCCAACTCTCCCCTCAGAGGTTGAGGAAGTACACAAGTAGAACAACTGCACCTGTTGTTCAGATGAGGCAAGCATGTTTACCTTCATTTACTCTTGGCATTTGCTATGAATTCCATGAAAGGGAAACAGGTGGCAAGAGTGGTATACAATATTCCTGAAAACCCTGTCACCTAGGATGTGTGTGAAACTCAAGTACTCTCCTCTGGGTTTCTTTTTGTGATTTGAATCTTTAGGGAGATGTTTCAGCTATGTTCTGTCTTTATATCTTCCCCTGACTTTTTTGAATTGTAATCAATTCGTTGCTATTGATGTAATGAAAATTGAAGCAAAACAAATCTTTGCTCATTTAATATGCTAGATTTGTTTTTATGTCCTTTAGATGAGTAGAAATTTTATCCACAAATAATGTCTGGCAGAATGCCTTGATGATTGAAGATTAACTTTTTGTTTCCAAGGTTAACATTTCTTAGAAATGTCAAGTGATTTCCATAGGCTAATGTGCCATGTTATTTCTCTAAATACTTTATATTTTCTAATTGGCATCTTTTCTTTTAAACAATCTTCCTAG
Seq C2 exon
GGACAAAAAGGAGAACCAGGATTAGTGCCTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026042-Col5a2:NM_007737:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(4.5=100)
A:
NA
C2:
PF0139113=Collagen=FE(11.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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]
Other AS DBs: