RnoINT0039904 @ rn6
Intron Retention
Gene
ENSRNOG00000018951 | Col4a5
Description
collagen type IV alpha 5 chain [Source:RGD Symbol;Acc:1565499]
Coordinates
chrX:112889335-112891871:+
Coord C1 exon
chrX:112889335-112889397
Coord A exon
chrX:112889398-112891817
Coord C2 exon
chrX:112891818-112891871
Length
2420 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCTTCCTTTCTAACTCCCAGGGA
3' ss Score
9.17
Exon sequences
Seq C1 exon
GGGATGCCAGGCCACGATGGGGCTCCAGGACCTCAAGGTATCCCTGGATGCAATGGAACCAAG
Seq A exon
GTGAGGATTTTTGAACTTAATTGTGAGCAGATTGTTGATCAAAGTCTAAAAACGAGACAGAGTAGCATTGCATTGAAGACAACATTTTCAGTATATTAAATTTCAGTAATTTCTTTAAGCCTGTCTAACTAGTGAGGGTAGTGTACTGGATTACAGGTTATTTTAAAAACATCTTTGTGCAAAGTATTATGAATATTAAAAGTGACTTAGGATTTATGTCTTTCACATAGTATAGAAGTCGTTGTGAGTAATATCTTGGTAATATCTTACTAATGTTGATTTTAAAAATAGGTGGTCTTTAAATTTTTGAATACTTCACATTTTAAGCTAAAACGAAAATATTGTGTGTTATTGATGCTGTGGAGGAAGGAGCCCATGTATACCACAGAACACACATGGAGTTCAAAGTACAGCTTGTGGGTCTTTATCTCTTTCCACCATGCGGGATACGGGTATCAAATTCAGATTGTCAGCACTTTGGCAACAGGTACCTTTATCTACTGAACCATCTCCGTGATTCGATTCTTGCCTTATTTTTTTTTAACTGCCTAAACTGTCACTGTGAAAGCTCCAAGTTTTTTTTCATCAACAAAAATGATGCCTTAACGAGTAAAAAAATACAAAGCTTTAGATAATGGCACTTTTCTTGTTTGGAGTTAACAATTTAACATTGGTATACAGCAATAGATGAGAAAAATGTGTAAAATGATATTTTGTAGCATCCTTCTTATTCCTACTTTTTTCCTTTCTTAAGTAAATGCACGATTTGTGTTTATCCTCTTAGCATTTTATGTTTTCTGCATAAGATTCTAATAAACTAGATCTACCCTATACTTTTAAATTAATGTCATAGCCCAGATTTTAACATTAGGGTATACGCTTTAATTAAATTCTTGCAATACAATGAACATGCTTTCTGAGAATTTTAAAAATATACATAATATCAAAACAATACTTTTAGATCCAGTATTTCCTAGGTCTCAGTAAGCCTTGCCAACAACAAATTTTTTTTTCTTAACACAGAGTCCCACTATGTAGCTCTGGCTAGCCTCGCACTCAGAAATCCACTGGCCTCTACCTCCCAAGTTCTGGGACTAAATGTGCACCATGCCTGCTGCAACAATTACGATTTTTAATGTGTAGATTTTTTAAGGCAAATATCCAGATTTGAGAAATTTATTTACATTCTTCATTCTAGCTCAGGCAGTCTTTGATGACTGGGCCAAAAGGCAATTTGTTTGTATAACACATTTCACAAGAAAATGAATGTTTTTGTTCCTATTCTGGAGACATAGCTATGTTTTACTTTCTTTTCTTTCAGGTGTGTGTGTGTTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTGGTGTGTGTGTGCACTTGGTGCATGTGCATGCATGTGTGTTTTGCCAGCATGCCAACAAGAGAACTATGATATTCAAAGAATTTAGGAAACCAAATGCATATGCAGACATATTTATGATGAAAGGTATTTTTTCCACAAAGGGTCCCTTTCATATATCTAACAATTATTTTTCTTGTTTATACTTTATGTCAGGTGTTTTTATATTATTAATAATTTCTTTATGTACATATCGGTCTGATTAAGTCTTTACTCTTGTCACTTGCTATGTATGTTCAATTATTGGAATCTTATATTGTGTTGTTCACTTAGTGTTTGGCTCTTGTGTTGTCATGTGTGTTCTGCCTTCTTGTGTTCTTATTTTTCTATGTTATTATTGTGTGTTGTCATGATGAAGCATTAAAATAATTGACTCAAAAGTATGTATAGGGATAGTTATTGTTTATATCTTGTGTGTTCTAGGAATTTTGTTATCATGTGTTTTGATAAGTGCCTTTGTCTCAATTTTACATATTGTTTTCCAAACCAAATGTCTATGTTGCTACTATGAAAAAAATCAGGTACCTAAGAAATCTAATGGCCTGCAATTTTCAGAAAATGTTGTTACTGTCTTCTTGGTGCTATTAATAGCCTTGTTCCTTGCCATCTTTTTCTTTTTGTGAAAAATAATTTGAAATAGTTTACAATGAGCGGAAAGTGAAATGGTAAGCTTGAAATAAGAATTTGTACAGCACATAGTCAGGAAATTGCAGCAAATCATTAATGATTAAATGTGATGATTATCAGAAATCTGTGGTGTGATGATCTCAAAATAGACTTTTCAAAAGAATTGACAGCGGTACTCTTTTCCCCTTAGATTTGATTGGGTAGATGAGTAGGAATCAAAATGTTTGGCTTGGTAGGTTGAATTGCTATGGCTAGTTGCTTCTGAAGTAATTGGAAAGTGGATGCTAAGGACATTTTGGTGATGTGGTATGTTTTAAATGAAACCATTGTGTGTCAAACATTGCTCACTGCTTCTTCTTTCTCTACGCTCTTCCTTTCTAACTCCCAG
Seq C2 exon
GGAGAACGCGGATTTCCAGGCAGTCCAGGCTTTCCCGGTTTACAAGGACCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018951:ENSRNOT00000064478:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(16.9=100),PF0139113=Collagen=FE(31.7=100)
A:
NA
C2:
PF0139113=Collagen=PD(7.6=50.0),PF0139113=Collagen=FE(27.0=100)
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]