RnoINT0039231 @ rn6
Intron Retention
Gene
ENSRNOG00000012759 | Col19a1
Description
collagen type XIX alpha 1 chain [Source:RGD Symbol;Acc:1308920]
Coordinates
chr9:30563505-30566032:-
Coord C1 exon
chr9:30565991-30566032
Coord A exon
chr9:30563610-30565990
Coord C2 exon
chr9:30563505-30563609
Length
2381 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTC
5' ss Score
6.8
3' ss Seq
GTTGTCTTTATACTCGCTAGAAC
3' ss Score
4.17
Exon sequences
Seq C1 exon
ATCGCGCTTCCTCTCTTGGGAGACATTGGCGCCCTGATGAAG
Seq A exon
GTATTCTTTTGCTATAAAAGAAACTACATGCTGGTGGGCAGGAAAGGTTAAAAGGGAACTTTCTACCAAAGATAGAATTAACCGCTCAGCCCCAAAAATTCAAATTCAAATGTTAGAGAATACGTAAGACAGAAAAGCACACGTGTCCTACAGTAGACTCTGGCATCCTCCGACTCTGAAATTCAGGGTCTCACGGTGTGGATATGGAGATGCGATGCGGGAAGGCAGTATTGAGATGAAAGGCAGGAAAGGGTGACATCATTGAGAGATACCTTTAAGTAGGTCTCGCCTCCTCTGAAGCAACAGCTTTCTCTTCCTAGATGTTTATCCTCCCTGGCTCCTGGCTGTGAATTGTATCTGCCACCCTGTCAGCTCTGATCACTCTTGAGATGAAAGTCTGAGCATCTAGCTTACAGATTGAGTTTTTAGTGTCATGGAATTTCACAGAATGAGCTATAAAGTTCCAAAGCCAACAATCGCCCTAACAGCTGTTACCCTGTTAAACAAAAATCATCTCTACTGATTATCTATTCTATAAAGTGCCTTGGGCTAAACATGGTGGCACATGCCTGTAATTTCAGCCTTTAAGAGGCTTAAGTCAGGGGCTGGAGAGATGACTCAGTGGTTAAGGGCACTGTCTGTTCTTCCAGAGGTCCTGAGTTCAAATCCTAGCAACCACACAGTGGCTTACAGCCATCTGTAATTAGATCTGATGCCCTCTTCTGGAGTGTCTGAAGATAGTGACAGTGTACTTATTTATAATAAATAAATAAGTCTTAAGCCATTTTTTTTAAAAAGGAGGCTTAAGCAGGAATACAACAAGTTTTAACTTAGCTTTAACTATTCAGAAACACACACACACACATACACACACTCACACACATCTATGGCTACCATCTTTTTTCTTAAATATTTGACTGTATTTTATTAGTAAGAATGAGGGATCTGAGGAATCAGGCAGTGGTAAACCTATGCATGTATAAAAGAGTTGGTGAACCCAAATGAAAATGTAGTTGATTTCACTCTTACACTTCCTGTCTATAGATGAACAGAAACTTTATGCACATACACCACCCATGCTTACAGATATTTCACTTACACAACTTGTGTTTATCCTAATGGTTTACCTGATGACTTACATGCAAACATGAAGAAATAGTTATAGCATTGAATCTGTGACAGGGGACATATCGGCTGCGGAATTAAAGTTTTCAGAAAAGATATATAAGTGGAATATTAATATAAAAACCTTTAGAGTGGTTAGTAGGAATTCCAATAAAGCAATATATTTTCCTAAGGCAGAATATTTGTGAGGGCTTCAGAAAGCTCTCTTATTTTTTTGAGTTGTAATTATTCTCCAGTCAATGCATTATTACTTATTTCTCCCCATTTAGTCTTTGCTAAAATGCTATAAGCTCAGGCTCAAGCACCATTCTCATTCATCAAAGATACCTGAAGTTCCAAGGAGCTAAACAATTTGCCCCGGACACATAGCTAATAGGTGTGAAGTTGACCCAGGAGTCCCTGTCCTCGGGCATTAAGTCCTAGATTCTTTGTAACAACAATGATGTGAGAAATGACAGGACTGTAGCAATTAGACACTTGAATGCTTGAAGGGGGAGAAATGTGTATACTCAACCAGAATTTAATGTTCCAATGGAATACGGATGGCTCACAGAACAGGCAACCTACTGAGTGGACTCTGTTAAGAGAGAACCAGGCCCGCAGGGGTCTCAGGGATCTGAGGAACAGGCGGTCTCGCCAGGGCAGCCTCCTCTACACTGCATTACTCATCCCGCCCACTACTCATTCCGTCCCAGAATCATCTCAGTCAGGTCCTGGTGGGATGCAGGCAACACCCTCTCTCCTAAACTCCCTCTGACCCAGGCAGTCCGCCAAGCCTTTCCAGCATAGCACCCTGTCTTCACTCACAGCTCCATCCCATCTCACAACGGCTACTCTCTGAGTCCTGTAGCAATCTCTCTACCCATCTAGTTCCCAGGGCAGGTTCTCATGGCATCAGAGATGTATGTGTGGTGTTTTCATTTTTAAGTACAAGTTCACCAGTATCATAAACCAAGATTAATGATTAGGTTTATCAAAGTTTTTAACCTCAAAAAAAGTCATCTTCCGGGTTGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCTCAAAGCCCTGGGTTCGGTCCCCAGCTCCGATTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGTCATCTTCCAAACTGGACGCGCAGGACTCTGAAAGCAAGAATGGCCTCACAATGGGACTCACTGGCCAGGTTCAAATAGATCAGTTTCCTAAACCAGTTGTATAAAACCTCTCAGTAAGTTGTCTTTATACTCGCTAG
Seq C2 exon
AACTTCTGTGGTAACTGTCAAGCCAATGTCCCTGGGCTGAAAAGCAATAACGGGGATGGTGGAGGAGCTGGGGAGCCTGGAAAATATGACCCTGCAGCCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012759:ENSRNOT00000017169:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.429 A=NA C2=0.857
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=PU(32.5=77.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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]