MmuINT0040076 @ mm9
Intron Retention
Gene
ENSMUSG00000067158 | Col4a4
Description
collagen, type IV, alpha 4 [Source:MGI Symbol;Acc:MGI:104687]
Coordinates
chr1:82458902-82463170:-
Coord C1 exon
chr1:82463062-82463170
Coord A exon
chr1:82458908-82463061
Coord C2 exon
chr1:82458902-82458907
Length
4154 bp
Sequences
Splice sites
5' ss Seq
AGGTAAGCT
5' ss Score
-14.76
3' ss Seq
TAGAAGATTTGTGTGCGTCCCTG
3' ss Score
-13.87
Exon sequences
Seq C1 exon
GACCAATGGGACTTCCAGGGTTGCCAGGGCCACCTGGTCTTCCTGGGGCACCTGGCGAGAAGGGATTACCTGGCCCTCCAGGCAGAAAAGGGCCAGTAGGTCCTCCAGG
Seq A exon
TAAGCTCTTGGTGGCCATCAGCTCCTACGGCATGTCCACACAGCCCCTCGTCTTAGCAGTTACTGTGAGGGTCAGCCTTCATTCAGAACTACTGCATACTTGTGAATTGAGCCCTTCCGTTACAAAGAGTGTATTTGTTTCAGATTGCCTCATCAAATCTCAGGTCTGAAAAATGATCAAAACATTTAAGAATTAATAGCTGATGTTGAATATATTACTTATAAAGGAAGAAATATTTGTGTGTTTTTCACTCATGAGACAGAAGAGGATTAAGTTGCTGTTAGGATTTTATGTGTACTTCTTGTCCCTAAATTTCCACAGACATCTTGTCTAATTTCTGAAAAGTATATTAGTTCCTTCAAGAAGAGAGGCCATTTAAACTAATTATTTAGCCAACATTTTTTAAACAGTAAGACTGAATCGGGAAGAGAAAGAACAAACGGACATATGTGGAAGTCATGTTTTTTAAAACCCCAAAACAGTAGCATAGATATTCAGCAGCAATTCAAATTGTTTTGCAACATTTGTGGTACCATAATCTAAAGGACAAATATAGCACACTCCTTCATTAGGGGTCACAGTACAGTAAACAGAGGGCTGCTATTTGGATTCTTCTTGCTTCCTTTCTGTGGCTATAACCTATCAAACATGACAGGTGAATACAGAATTTTCAGGAGACTTTAAGTGCCACAATTCCTATACGCACTCACTCAGGACAAATGTACCATGGAAAAATCAACTAGAATTGTCTGTTTCTCAAGAGACTTTCCTTTCAAGTCCTTGGAAGGGTGAGAACTCCATTAGTACAGAATTGTAGCTGCTCATGTCAATCAGTCAATCACAATGATGCAAACGCCTTATGTAAATACATCCACACTCTGCTTGTCACCGATGGCCCTCACACTATTATTTATGTTCTCAGCCATTGCTTTCCCCTTTGTCCTCACTCACAAATTTAAATTTTCTTTCCACCACATGAAAATCATCGCCTGGTTTTGCATCTTGCGTGGCACCTCTCCAGGCTGCAGAGGTAAGAGTTACTGTGAAATGGATAATCCCCCCGCCCCACCCCCACTCTATTTGCCTGTCTTTCCTGCACTTACCCTCCCCACTGTGTTTGTGACTTAAGCTGCTGCATATTTTTATAAATGGGGTCTCTGGGGTCATTGAAGGTTTTAATGTCTTGGCTTCTTCACTGCAGCTATAGTAAGTAACCTCATATTAGTGTCCTGGTGATGACCCTCATTACAGGTTGTCAGGGTGAGGTAGCTTACAGAATTTTAGTCCAGGCAGTAAGTGTAAGTGCTCTTGTTACCAGATGCCACAGAACACGATAGCGTAGCTTCTTTTTTTAGGGTTCCCACAAGGTAAACATACATGACATCTCCAAAAACAGCAATGCCAACGGACCTAAACAATGAGCCTTTCCTTACACTTATAAAAGACATAAGTGCATTTTCAAGAAACAAATTTGTTTTTGTGTTAAAAATAAAATATTTACATAATACTCTGGCATGCAAAAGCAATGTGTGATTTCGTATTAAAAAATGTTCCCCAAAGGATAAAGGCAGGCATGTGTGGTAGTTCATATTGGTAATCCCAGCTTTGGAAACTGAGGTAAGAAAGTTTGCCATAGGCTAGCCTGGGCTGTCGACTGAGGCGATTTCTCAAAGATCCACCAGAAGCTAAGCAGACTGCTGAGAGGGGTCATTAGCTAAGACACTGGCTGTGGTCCAAAGGACCAGGGTTTGATTCCCAGTCCCCACAAGGCAACTCACAATTTTCCAGTTCCAAGGAATATGATACCCTTTCTGACCTTCACAGGCACTAGGCATACACATGATAACCAGACATACATGCCATCAAACACCCATACAAATAAAATTAAAAGAAAATTTAAATCTATCCCACCCCAAAAACCAAAAACAACAACAACAACAAAAAGAAAACAAATTACAAAGACACGTGTTTCTTTCTTTCTAGGTATCTGTTATTACACTAAAGAAATTTGCCCTGAAAACAGGTCCACATATAGCTTTTAGGGAATTTAGAAGAGATATTTTTATGCCTTTTCTTTCAGCTTCTGCACTATTAAAAGGTAAAGGAAAACAGAATTAAAACCAAAGTTGGCTGTTTCTGAATTTTCTGTGTGATAAGTTGAAATTCACAATCCTTACCTAAAATCCACCAAAAAAAAAAAAAAAAAAAAAAAAAACGGGTGAGGTGTCTCACCTCTGTAATCCTAGCACTTGGTGGACCAAGGCAGGAAGGTTCTCTGACAGAAATTGCCACGGGCTATGTAGTTTTAGTGAGATGCTACCTCAAAAAGCCAAAATAACTAAAACAAACAATAAACCAACATAAATAAACAAAGAAACTAACTAACTAACTAACTAAGCTCTCCCAACTTGCCCTCTTGGAAAAGCCCAGCTTATCCTGGGAAAATAGGAGAGATCCTTGTGCATCCCTCAATAGCTTGTGGCAAAGTCAAGTTTTATGTTAAGCTGGACATACTGTGAACAGTTCTCTGGGTCCATGTTGCTTATACTTTCATGCCATATGTTATGAAAGGTTAAGTCTCAATCCTCTTACAGACTTCAGGTCCATTCTATAAAGGCACAGGAAGTATTGTGCCAGTTGGTACTCTGTGGTCATGGCCAGAGTTACTCAGATTTTTCCTTCTCCTTCATTATTACTATTTAAAATTATTAAGCACATTTGCATGAACTTCAAGAAAACTGTAACTAACCAAATGGTGAGTTCATAAACATTTCTTTCCTTAGAATATATGACACACATGAGTTCTTTGCCTATGGATCTAGCTCAATGGTAGAACTTATGAGTATCCCTGGGTCCCAGGAACATCACACACACACACACACACACACACACACACACACACACACACACGCACGCATGCATGCACATACACACAGAGACTCATGTGGTGGGGTGGGGTGGGAGTGGGGGACAGAGACAGAGACACAGAGAAATAGAGACAGAGGGAGACACACAGAGAGACAGAGAGTGAGCTTAAGGCAGTATGATAGAAAGATACGCTAGTAAGGAAACGATGTTTGAAATCAGAGCCTTCTGATTATAATCTGGACTCTGAAGTGTTCGGGCTGTGTAACTATAAATATATAACGTATCCCTGGGGTTTTCTTACCTCTGATAGTTTGAAAACATAGCACATGGTATGGTTGTCTAGAGAATGGAGTGATAAAGCCCTTAGCACAGGTCCGGATACAACCAACGCTTTCAACATCTCTTCGCAGTTCTCAGTGCTGGCTCAGTGGTGTTTGTGGCCTCTGTGGGATGTTTCAGGGTGAATGACTGAAGCTTATGGAAGCAGACTGTCTTGATGTAAATATAAGCAGTATTTTAAGAGTGTCAGCCCCTCTGTGTGGGGTTCTCAAGGTCAGATAGCTTGGTCAACACTACTCACCTCACTTGGGAACGTTCTACAAATACACATGTATTCCACTTCAGACCTCCTGATTCAGAAACTGTTTTCTAACCAATTGGCTGAGGATTCTAATGAGCTGGAGTCAGAACTCAGCTCCATAAGGGTGCCTTCTCAGCTCTGGCTGACTCTGGAACTCGCTGAAGAATCAAAATCATTCTAATAAGCCTCTGGTTTCACCTCAGAAATTCCCAGGGGTCCCATCAGCCAAACATTTGAAAAATCCCTTGTAGCTGGCTTTATCAAGTCCATTGTTGAGGGCACTACCAAGACTAGCAAGGACCACAGTATTCTGTGGGGTAGGAGCACAGGTAACAGGTCTGTCTTTGTGACCCTTGTAGATCATTACAACCTTGACTGAAGATAGAAAAATCACTGCATGAGAGCCTCTGGCCATCTTGAATTATATAGGGGTAACTGATCCTAGGCAATCCACTTGGCTTTAGTATAATGAAGAACACCCTAAGCTGAGGACCCTGGGTTCCTCTTGCAGTGACAACTATGGCTAGCTCACAAGTAAAAAAATGGCACAAAGGGTGAAAATCTCTTGAAGGTCATTCAAGCATTGTTACCTCAGCCAAGAGCCAGTAATCTCTATTTCTGCTTTTGCTGGGCCATCCATCCCTCATTCCAGTTGTCACTCAGTCACTTACTCCACAAAGGCTTTCTAGAAGATTTGTGTGCGTCC
Seq C2 exon
CTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067158-Col4a4:NM_007735:42
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=NA
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(23.7=62.2)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
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: