RnoINT0039860 @ rn6
Intron Retention
Gene
ENSRNOG00000018951 | Col4a5
Description
collagen type IV alpha 5 chain [Source:RGD Symbol;Acc:1565499]
Coordinates
chrX:112895727-112898229:+
Coord C1 exon
chrX:112895727-112895789
Coord A exon
chrX:112895790-112898193
Coord C2 exon
chrX:112898194-112898229
Length
2404 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TCCTTTCTATGTCTTCTAAGGGC
3' ss Score
9.17
Exon sequences
Seq C1 exon
GGTCCACCTGGTCCCAAGGGTGTATCAGGGCCAAGTGGTCCTCCAGGACCACCAGGTTTAATG
Seq A exon
GTAAGTTTCTGTAATTATATTTTCCCCTTTGCTATCTGATTCACAGATATGATTACTGATTATATAACTTGAAAGTTAACTTAATTTCAATATTCATGGCTTTAATTTTGTTATTTATCAATGGCTCTATTATGGCAAAGAGTCCATTTTAAGCAAGCAAAGTCCCTATAGTTTCATACAGGTGAAAAAAATACACACATAAAAGTAAATACATGAAATGGGAGCTGGTCATATAACTCAGTGGTAGAGTGCTTGCTTAGCACATAAGAGGCCCTGCTCTGTCCAGTGCAGAAATATAAAAATGATAAATATTATTGTAATACTTAAATTTCATTGTAGTTGTGATTGGAGTTAGGCCTTTACTGCCATCCTGTTTAAACGACAATAAAATTGTTTTCCTGTCAAAGCAATTTTTCATATGCCTTTCCGTGTCTCAGATATTATGTATTCAGTGACAATTTTCATATTTTCATTATGCTTGTATGGATAATGCACAATAAGTTCTTACTCTTAAATAGGGGTAATTATATATGCTACATTCCAGAAGAGTCTACTAAAACTCCTTAGGAAAGGCTTAACCTTTCCCTGTCCCTATTAGTTTGATTTAATTGTAAACATCCTGCTATCAGGGGACTGTAGGCCATGGCACTTTTTCATAATTCTGCTGTTACAATATTGATGTTTTCTGGGTCTGTTATTAAACCCTGAATTGCTTTAACCCTTGTAATCTTATTAACTGATTCACTACACACTTCTGTATATTCCTTCAATTAACCCAGATTTGATAGAGGAAGCAAAGTCTTAGAAACGACACTGATGTATGATATGTAAACAAGCAGAGAATGCTGTTTAAAAGCACTATACATAGGCAGGCAAATGCCTATTTAATACTTAAAAATTATGGTCTTTATTCTTAAGAATTTCATACATCTACTCAATAAAATATGATTGTTTTTATCCCCTGTTGCTCACCTCTAATTTTCCATATGTCTGTCAACATTTCCCTTCTCAGCTTCATGTTTTTAAAAGTAACCCATCAAGTCCAGTTATTACTGTCTATTTGAAAATAGATCGCCACTGGAGCATGGCGATCCTAAAAGTGGCCACATCCTCAATAAAGGGTGACTTCCCCTTCCCTAGTAACTGATGACTGCTGATAGCGTCTCAGTGAGAAGAAGGACCTGGAGGTCATCTTCCATATCTGTGCTAAGAGTTTTGCTGGCATGATTTTGTGACAGTCTTCTGTAGGTCACCCTAGTTTCGGTGAGATCAAGAGTACAATAGTCATGTCATGTTTAGAAGGCAACTGTTTACAGCACTACTTCTCATCTCTAAGATCTTATAGTCTTTCTACTTTCTTTCCTTCTGAGCCTTGGGAGGGAGAGTTCAGTATAGAGCTGAACACTCAGTCTCTTATTCTCAACACTTTGACTAGTTATGCATATCTCCCATTGACTATGCCCTATTACAAAAAGGGGCGTTTCTAACCAAGTCAGAACAGGTATAAAAATAAATATGTAGAAGGCATATAGACAGCATGACCATTTAGCAAAATAACAGTAAGTTTCTATCATGATGTCCAAGACCTCCCGAGTAATGGGCTTTTGACCAGGGTTGTAATATGAGGTTTCACATTCCTCCAGAATGTCAATCAGAAAAGGATTAGTTCCCAATAACAGTCATACCACTATTGCATTAGTGGGCACATCTTGTCTGGTAGGGAGGAATTGCAGTATGCAGGACCCAGCAATGCTCAACACATTGATGTGCTTTCTCTCCCAGCATTTGATGTTGTACAGTCTGGCACCGTGAAAATCTGGCCACTAAGGAGAAAATTTCCTTGTGTGTTTGATATTGGCTTCTCTGTAGCCTGCAGCCAAAGTGTGAGGGTTCAACAATTGGGTGTCAACAAATAGTTAAGGAGGGTAACCAAGAGAAGCCTACTCAATTTTTCATGCTGTGAGCCATGATCAGAAACACAAACACAGTTGCATACAACAAAGCTGGTTTAAAATTGAGCATGTATGTGCTTTTTAAAAATCAACTCCATTGGTTCGCATAATTGTGATAAAAACATGTTCATTGAAGTTAACTTCTTTGGTTTTGGTACTTGTGCTATCTACCCTCTCATATTGATCCTAACTTCTGCTCCTGTCAATTCTCGCCCTGTCACCAGAAGTTTCTACATTTGGCTAGGTTGTTTTAATCAATTGAACTATATGCCTCTAACAAAAATACAATCAAGATGTAAGTAACAGGATTGTTTAGTACGTGGCTGCTTTCTCTCTGAGCTATATCCTCAGAATTAGAAATAGTTTGAAGGTCCCTTTCAGTAGTCATATAAAACAAAGTTTTAAAGAAACATCTTACTAAAATCTATTTTCTCCTTTCTATGTCTTCTAAG
Seq C2 exon
GGCCCTCCTGGCCCACCAGGCCCACCGGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018951:ENSRNOT00000064478:10
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(32.8=100)
A:
NA
C2:
PF0139113=Collagen=FE(18.0=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]