GgaINT0046412 @ galGal3
Intron Retention
Gene
ENSGALG00000012448 | ORC4
Description
NA
Coordinates
chr7:36189512-36191339:-
Coord C1 exon
chr7:36191253-36191339
Coord A exon
chr7:36189621-36191252
Coord C2 exon
chr7:36189512-36189620
Length
1632 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
ACCTTCTGTTTTATTTTTAGATG
3' ss Score
11.57
Exon sequences
Seq C1 exon
CTTCTCACAGAAGACAAAACCGTGCAAGACATACTGCAGAACCTCTTTCACTACAGCAAAGATCTGCGTTCACTCAATTTCCTGCTG
Seq A exon
GTATGTACTTGGATACAGTATCTTCCTGAATTACCATAACCTATGAAGATCACAGCTGTTTTCAAGGCAGCTATCAGGGTTTTACGTGAAGCATCTTACAGAAGATAGGTAACATTAATTTAAACACCATAAAATATCTATGTGGTTCTGCCTGGGTGAAAAACCTACTAAGCATTAGTGCTTATATGTCACTATGTGCAAGTATTCAGATTTTACCTTCAGCTTTGTGGTGGGCTGTCCTGTGTAGTGTTTGCAGCCCTTCCCAACTCTGAATTTTTATTCCCTGTGATTTGTGGATCATTGACTTCTGGCTCTGGTGCTGAAATCAGAGCGTGGTCAGAGTCACTTCTCTGGTTGTCTTCTGCTTAACTGAGTTAATTAGAAGACTGCCACATATTCCAAATTTAGCAGCACCTGTTTCTTTTGGTGTGGTATGGATGAATGCCAGAAAGAGTTCATGGCTGATAGGATTAATTTTTCTTTTTGCTCCAAGGTGTGTCAGAGCTGATCCCCATTAGCCTTTGTAGTCCAGAACCTCATTCTGTTCCTCTGGAAGCTGAGTGATCACATTCCTTTCTGAGGCTGTGTATGGCAAACAGGTGTACAGGTATTGCACCAGAGAGATTATTGCGTTACAAAGGAGAAATGAAATAAAGCTCTTACCTGTATCCTGGGCTCACAGAAGGACTCCAAGAGGAAGGACCTCCAGATAGAGATCCTTCCTCCTTGGGAGTCAGCCCTTAAATGGGGTCCAGGAGGTCACTCAGGTGAAATTGCGTTCACCTGTGCCCCTGCAGCTGACTCAGCACTCGCCTCAGGTGGTCAGTCAGAGGTTCAGGCCGTGATTCAGCAGTTCCCATACAGGCTGTCACACTGACATCTGCAAGGAGAGGAAGAGGACAAAAAATGTATGTGGTGGTAGAAAGCATTGGATGATCTCAGTGAAAGATCTGCATTCAGTAGGTGAAATGGACGTGTTTTAATCACACAGACATGCAAAAGTAGGAGGCAGTCACTGAAAGCCAGTTTTTCTGTCTCAATGAGTATCGAACTACTAAAGAAAAAGCAAGTGAAGGTCTCTGCTTGTGCCTGCTGCTGTATGAAGGTCCTGGATAATCCATAGCTTTGAAGGAGTGGTGGAGGAGGAGGTCAGATGTGTGTTTATTAACTCTAGTTTGTTCAAAACTTGCTTTCTGTGACAGGCAGTTGAAGACTGATAACAATTCAAATTGTGACAAACCATGAGCTGCCATCACATGCTTTCCTGGCAGTGACACGAATAGCTCTGCATACAGAAGTCTGTTTAGAATAGCTGTAAGTACTTTCTTGCAGCAATCACTGAAGTATGCTAATCCATTGAAATTAATATAAACAAGCTAATGAGTGTTTATGTCCTCTGGTGAGGAGGCTTTAAAGTTTTGAGCCTGGAAAACCTTCCTGGCAAAACACAGATGTAGCTACCAGCTATTTACAAGGTTTTTGTATGAGCATATTGTGTGCACAGGGTTTATTCATGAATGTTTCCAGTAGGTGACTCCAGGGGAAATGTGTTGTTCTGCATTCCATCTCTGAGTAGAAAGTGTGTCTGGTGATTAGTAATTAAATGAGAAATACCTTCTGTTTTATTTTTAG
Seq C2 exon
ATGCTTGCTGTAAGTAATGTTACTGTTCGTCACCCTCTTATCACCGCATCAGATCTTCAGGAGGCAAGCAAGCAGTACAGGATGGACTCAAAAGCAAATATTGTCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012448:ENSGALT00000020350:9
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:
PF146291=ORC4_C=FE(14.6=100)
A:
NA
C2:
PF146291=ORC4_C=FE(18.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACAGAAGACAAAACCGTGCA
R:
TGGACAATATTTGCTTTTGAGTCCA
Band lengths:
190-1822
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]