RnoINT0039241 @ rn6
Intron Retention
Gene
ENSRNOG00000012759 | Col19a1
Description
collagen type XIX alpha 1 chain [Source:RGD Symbol;Acc:1308920]
Coordinates
chr9:30547164-30551017:-
Coord C1 exon
chr9:30550991-30551017
Coord A exon
chr9:30547218-30550990
Coord C2 exon
chr9:30547164-30547217
Length
3773 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
ACCTTCGTTCCTCTTTCTAGGGA
3' ss Score
12.02
Exon sequences
Seq C1 exon
GGCCCAAAAGGTGATCCTGGCCCAGTG
Seq A exon
GTATGTATGTTCCTACTTCTGTGCAGTCTTTGTTAGCACTAGAAAGAGCACCAGGCGAAGATGGGCTGTCATCTTAGGTGTCTATCAGTGAAGGTGTCAGAGGCAAACAAGCAAAGGAAGAAATGTCAGCAAACTCATTCTTTATTTTCAGGAGGCTTTAGTCCCCATTCTGAGCCTGCCCTTGAGGCTCTGCTCTCCCCATCAGCGAATTTTAGAAATCGTCCTCTGATGTAGGAAGGCACACAGAATGCCCTTGATAAATGGAGCACTGTCCTCTGACGCCCTTCTTTGGATGATTGATGTCGTTTAAAGTAGCTTGTGGAAGAGGAATACTTAAGGGAGAGAAATCCCTTGCTCTGTCTGACACCTCACCAACCAGAAAAGGGGGGAGGGCTGCTTATTTACTTTGCACGTCTTGGGCAGTTATTCTGCAGGGAGTGTAGACCGTCATAGCCCCGCTTATGGAGAGGAAGACAGCAGGAGGTTGACACCCAGCAAGGAAGGAGATCATGTCCTCCAGCAGCCCAGAGGAGGATAATTGTTCTCGGCATTCTGGAGCATCCCTACAGAAGTCCTGCCAGATCCAATTAGGTCCCCTCCCACCTTCATCGTCATCTTGTTTCTTTCCCTGCCATGTCCTTTCCAAGCAAATATTCCACCTTGCATTCCGTTCGTATAGCCTTTTAACCTCAGAGGGAAGAAGCGAAACTTAAGTGTACCTAATACCGAGACAAGCTTCCCAACCACTTCCTGTGGCTATGTGAGAAAAATAACAAGTCATTTTACTGTAATAGTGGAAGTTGATAAAACCGTCCGAAAGGAAAAAAAAATGTTAAATCGGAACAGAGACGAACCATGGAAAGTGACTTTTTCAAAAGAGGGTTATCAAAGGAGTTATAGTTGTTACTGGACAACATATATTAGATGTCTATTTGATTTACCCTAAAATAGTTATTTCAAGTCCTTAGTCCTATATTCTGAAGCCCAAATATGTTATACGGGAGTTACCATTTCTTTGTCTGCAATTTTTAAAGTACTATTATATCTGTTCATCTAGAAATATGTTGTTCATTTTTTATTTCTATTTTTTCATCATATTGATAAAAGTCCCACCCCCCAGTCTTACTTTCTTATGGACTTACAAAACAGCACCCCCTCTGAGTCACAGAGATAAATTTAGACTTCTCATTGACTTTTCTGGGACATTCTTTAAGTTCTCATGTTAATAATTGCAGGTTAGGGTAAGAAAAAAATTTAAATATTATACAGAAGAGTAAATTATAATTTATTAGCACTGGAAAGAAGCTAGTCAAAATATAAAGACTGGGTAAAATTTGAAGAAATTGGGTCCCATGTTTCTTAGCTGTGAGACAACAAAGAATAAAAAACCAACAGGAGAGTAGTCTCTGTTTAGACTGTGAGCTTGTATGAATGAAACACAAAACAGAGACAGAAAGCCGGAGAACTAAATATTGTGTGAACACTCACACTTACCATGCAAAAACATGCCCTGAAATTCCTCCCTTGGGCCCTATATGCCTGTACACAGCCACACACCATTCTCATTGTCACCCACCATTTGCTGGGTCCCATGACACAGGAGTAAGCCAGGAGTAAGAGAACCGTACTGGCCTGAGAATGTATTTAAAAAGAGACCATGAAAGAGGTAGGTAGGGGAAAGGTACCTTCTGGTTGTCCTTCAAGTTTCATGACCTGTTAAGTCAGCTTTGTGTCACTGGGACAAAACACTTGAGATAAACAACTCAGAGGTGGGGAAATCATTGTTTAGACTGACAGACAATTTCAAAGGTTTCGGTCCATTGTCCGACCTGTGGTGAGTCAGAATATGTACCAGAGAACACTTGGGGAGGGAACGCTTTGATAGTCTCAAAGCAAAAGACATCTTTCCTTTATCACCAAATCTTGTCCCTACAGCCCAGTAAGCTATACGTCTGTAATGGGTTAATTGGTGAGGTCAAAGTCCTCATGGTCTGTGTTCAGTCAGTCATGTTACAGATCAGCCCTTAAACTCATGAACTTTGGGAGAGATCTTTAAGGTTCAAGATAGAACACGTGATGTTTCCTTTATAGAGGAAAACATTACATTCAACTGAATCTGCTAATAATTGGACTGTTTCCTGATGCAGACCACTTTTTTCCTCTAGCCATTCAATGTCTAAGTGATTTCAATTAAATATTTAATTACTGTGTACTCTCAAACAAATGCCGATTAATTAATTGATTGCTTCTTCTATCCCAACTGTTGAAAGTTTAAACAAAGAGATGTGATACCAGGAAATATTCTGTGCACCCATAAGTAGAGGCCTCCTTCATACGGACGCACACAGAATACAATCTGAACACCTTTTTGGTTTTTATTCTTATGATTGACAAGCTATACACTGGTGAGATTTTTTTAAATTCTGAAACGTAAAACATACCAAGTTGTATGCCCACTTGTTGAGGAGTACGTCATGGGGCACAAGCAATAAGCAGTGTACAGCTTTAGAAGTTTTTCTAATCAGATTTGTGCTCGGTGTGCAGAGAATAGGTCTACAGAGAGTACAATTGAGAAGCTTGCTATTCTGTGTTATATCAATTTGCTTGCCCGTTTGTTTGTTTTGAGACAAGGTTTCACTGTGAAGCCCTGGCTAGCTGGGAACTCTCCTTATGGGTCAGGCTAGTCTGGAACTCACAATGATCTGAGATCCACCTGCCTCTGCTTCTTCTGCTTCCCAGGTGCCAGGATTAAAGGCATGCACCGGCCACACCCATCCAGTGTTGTTACGTTTAAAATATCTAGTGACCTAAGAAAGTATTTTCAGTTAGCAGCAATTAATTCGTTAGAAGTCATCAGATAACTCTCCACTTCACCTATTTCTCTATTTTTCTAAGGATTTATTTTTCTGTGCTTTGCTTGCATATACCCATGCACAACGCGTATGTAGTACTCGCATATACCTGTGCACAACATGCATGCAGTACTCACAAGCGGCCAGAAGAGGGCACTGTGTCCCTGGAACTGGAGTTAGAGGTGATTGTGAGCTCCCTCGTGGGTGCTGGGAACTGAACCAAGGTCTTCTGCAAGAGCAACCAATGCTCTTAACTGCTGGGCTAACTCTTACATCCGTCTTGATCATGATGTTTGTTTGTTCAAATAATCACTATCTTTTGATGTAGATTTTCCAAATATCTTACTTGAAGTCCTATAGTCTGGGAGTGCAGTAGAATATTTATAACAGGATTTTATCTGTTTAATTTTGTTTATTTTTTCCAATGCTGCCTATCCCCTGTCAGTACATGTCAGCAGGAGCAATGACTTAGAATGACTGAAGCTACCCCTCCCAGGGCTGTCTTCCTTAGCATTTACAATCACGTTAAGGATACCACATGCTCTGTCTTGGGAGCTCCAGCTTCATTCGCTCATAGAGAGTTCGATCTTATTATATCATAAGCTAGCAGCCCCAGGTGCCTCACAAATTGGCAAACTTTATTAAAAATCTGCTCTTCAATTTTAATTCTGACTAAAATTGGAGTTATTAATATACTAGAGTGGCCATCCCAATTAGATTCTTCATCAGAATAAAAACAATTAATCAGAAAATGGACCCGTGCCTGGAGAACGGCCTTCATTCCCAAACTATTTCCATACACCTAATTTGGAAAAAGAGGATACCACTCACTTGCCAAGTTTTGAAGCGATATTGAAGAGCGTAGGACATCAAACACCCGACTTTAACCCGTTGCTTATAAACCTTCGTTCCTCTTTCTAG
Seq C2 exon
GGAGAGCCTGGTGAAATGGGCTTGCCAGGGCTAGAAGGATTTCCTGGTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012759:ENSRNOT00000017169:40
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(13.1=100)
A:
NA
C2:
PF0139113=Collagen=FE(27.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]