RnoINT0078148 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56766290-56768127:-
Coord C1 exon
chr4:56768007-56768127
Coord A exon
chr4:56766370-56768006
Coord C2 exon
chr4:56766290-56766369
Length
1637 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
CTGGGTTCCTGCTTTCACAGAGG
3' ss Score
6.63
Exon sequences
Seq C1 exon
CTGAAGGGCAAGGGGCCTCCCAGCCTGCACTGTCGCCGGCGCCAGTGCCCCAGTCTGGTGGGCTGCCCACCAAGCCAGCTACTTCCTCCTGGCCCCCAGCACTGCTGCCCTGCCTGTGCCC
Seq A exon
GTGAGTCCCAGGCTGTGGGATAAACCAGGAGGGCGGGGCTGCCCCTCTGAGAAATGCTTGTAGAGTCAGCTAGCCCTCCTCCCACGGCCCTCTCCTGACTCACACAGACAGTTCTGGAAGCTTCTGCCTAAGTTGGCAAAGCTGGGGGTCGGGGGAGCTGGCCTCTGCAGCCCATGCGTGCAGGTCGTGGAACATCCTGGCTGGGAGGTGGCACGGCAAGGTGGCAATTATCTTCTGGCTCTGAGGGAGCTGTGAGGCAAAGGGACATTGGGGGGAGGGGATAGAGAGAGCCCATTCTGTTTCTTTTCTGTGAATAAGAATTTGTAAAGAGGGCTGGAGAGATGGCTCAGTGGTTAAGAGCACTAACTGCTCTTCCAGAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCTGATGCCCTCTTCTGGTGTGTTTGAAGACAGCTACAGTGTATAATAAATAAATCTAAAAAATTTTTTATAAAGATGTAGAGCAGGCTGTAGTGGCGCATGCCTTTAATTCCAGCACTCAGGAGGCAGAGGCAGGTGGATCTTTGAGTTCTAGGCTAGCCTGGACCACACAGAGAAATTACAATTTCTCAAAAAAAATTATAAAAGTATGTAGGGGTAAAGAGAGTTGTATTTTTATTATAAATATTGTAAAATAGCCAACTGTTTCCGTGATTGAAGACTTGGGAGTTTGCTCAACCCAGCCATCCTTCTTCGTGCAGAAGCCAGGTGTTGTCAGTGAAGTCAGTGAAACACAGCTTCCTAGACGTGGTGGCTCACCTTTGCTGGCACACTCACGTGTTCCTCCACACAGGCAGGGTTCTCTGCTGGGGATTGTCTGCCCCTCTGCATTCTTACAGTTCTTACTGTAAAGACATAGTCTGCGGTATCCTACAGTTTCACCCCAGCCATGTTTCAGCTAGAGCTCAGGAGTATTCAGTACATTTGTAATGTAAAAACCACCACGGCCCTCCATCGGGACGATCTATCCGATCTATCCTTAGAGCACTTGCTAGAATGAACCGCAAGGGGTAAGAAGACACTTCCGTTATTAAGCACCTACTGCATGCCACATGCTACTTGGTGTGTCTCATCCCATTTTCACAGCGACCCAGTCGGGTGCGCGGTTTACACATGAAAAACGAGACTCCGAGATGTAAATTAATTTGTCCATTGGTGGGTGGGACCATGGCTAGAACCTGGGCTGCTTCGTTACTTCCCCCTTTGGGAGACTCTATGAAGGGAAGTGACAACAGACCAGGCAGCCTGGCGTGCTCCATGATGTGTGAGTGCATGCTGTCTGTTTCCAGCCCCACCTCCCTCAGCATCATAGCCAAGTTCTCCCAAGAGGCTAAAGATGCTGACTTTGGCAGGACATATACTAAAATCGGGCAGTAGAGGACAGATATCTTTGCTATGGAGGTGCAAGAATGACATGCAAATTCATGAGTCATTCACATTGAGCTAACTTTCAAAAATAGTTCCTAAATTTTCAGGTTCTGGGGATGTTTGGCTGTCTAAGACAGAATTCTGAGGACAGAGCTGGGACTGTGGCTCCTGTCCCCTGACCCCCTTACCCCACACTGGGTTCCTGCTTTCACAG
Seq C2 exon
AGGCACTGAGTAACTGCACAGAGGACCTGCTGGGGTCTGAGCTGGTGCCACCAGACCCCTGCTACACCTGCCAGTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(57.6=92.7)
A:
NA
C2:
PF0009313=VWC=PU(32.7=59.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCCCAGCCTGCACTGTC
R:
ACACTGGCAGGTGTAGCAGG
Band lengths:
183-1820
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]