GgaINT0035015 @ galGal3
Intron Retention
Gene
ENSGALG00000003443 | LRRC52
Description
NA
Coordinates
chr8:5739588-5741593:+
Coord C1 exon
chr8:5739588-5740212
Coord A exon
chr8:5740213-5741342
Coord C2 exon
chr8:5741343-5741593
Length
1130 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTTGCTTTTTTCCTCTGCAGACG
3' ss Score
11.87
Exon sequences
Seq C1 exon
ATGTCTCCTGCAGGTAGATGGCAGCCCCTGAGCCTCGTGTTTCTTTTGGGGATGGGGATGGCGGCGGGGGATAGCAGCTGCCCGAGCGGGTGCAGCTGTCGGTACCTGGAGGTGAACTGCACGGGGCGGCAGCTGCAGGAGTTCCCCACGGCCATCCCGCTGGACACGAGGCAGCTGATCCTGGCGGCCAACAACGTCTCGTACCTACCGGCAGTGGAGCTGAGCTTCCTGGCGGATCTGGTGTACCTGGACTGCCAGAAGAACCTCCTAGGGGATGACCTGGATTTCACTTTCATCGGCGTGGTCAAGCTCGTCTACCTGGACCTCAGCTTCAACAACCTGACGCAGGTCACCTTCAGCACCTTCTCGCAGCTCCTCAGCCTGGTGGTGCTGAAGATCTCGGACAATCCCAACCTCGTAGCTATCGAGAAGGATGCTTTCGCCAACAACACCTGGCTGAGGCACCTGGACGTGAGCCGGACTGGTTTAACGTTCCTAGATGCCAGCACCGTCCAGGACCTGCCCAACCTGAGGTTTCTGGGGCTCTCTGACAACCTGTGGCACTGCAACTGTTCCTTTTTGGACTTCATCACCTGGATGACAGAGAGCAGTGTTCATTTTCCAG
Seq A exon
GTGAGGGCTGTGTGAGCAGGATCCCTCTTCTCCCCATTCTGTTCCCGTGTGGAATGGACAGGGCCCTCTGATCTCTTTGCATTCAGCTCGCTGGGGCTGTGCCACCGCCTGTCAGCCGTGCATCCCATCATCAGGTGTTGCACAAAGCACTGATCGGAGCGGCTGGGCTGCACACTTCTCCACCCTCAGTCACACTTGCTCACATCCTCGGGACACTAAGGGAGGTACAAAACGCCTGGCAGCAGCCTCAGGAGGTATCGCTGTGCCTGAGAGTCACAGCACTCTGCGGCCACAGTGCCAAGAATGAGGAGCTGGCTCAGGGGAGATGTGCTCTGGGAAAGCCACTTCTCTGACTGTCCTTTCCTCCATCTGCTTTGATCTTTTGTTGCTGCTGCAGTGTTGTGTCTGTAGTGGTCAGTTGCCCCCCTTCACGATCAGTAGAAATGCTTGCAGTGCTGGTCTGTTCCTCCCTCTTCTCACCTCCTTGGCACAGCCTCTCCAGCCCTGGGCTCTCCTCTGTTGCTCCTGTCCCATTAGCTCAAATACTGCCTCTGTTCAGAGAGAAAAGCCAGCATCTATTATCTCACAGCCTGTACTGGAATACGACAGGACATAGGCAGTACTTCCATGGAACTGAATCACTCATGAGTTTCTTATCTCTCACAGAGCAGGTGAGACTGTGCCTAATTGCAAACCATTCTAGTTTTCAGACTTGACTTATTGCAAACCTTATTGTTCTAGTCTAAAAAGGCCTCTTTCCCTTCAGCCTTGTCTCTTAAGAAGGTGTTTGAGGTTTTAAACTAATTACGGATGCTCTCATATTGAAACAAAAGTGCTCAATCAGCAGAGATGAACAGCGCAGCTACCGCACTTTGTCACAGTGCCATAATCCAAACAGAGAGATTCTCTTACGGAGGCATCGCCACAGCAGTCATTCTGGCAGGCTGGTGGTTGTGGCTTGGCCAAAACCTGGCTGATTTCTCCTAGGCTATGGAGGGAGAAGGACGTGAAGTCTGGAGAAATTTCCCAGGAGTTTAGCAAACTCCTCCATCACTTTTCTAGCAGGACTCCTGCTCACCGATGCCTTAGACACAGGCAAAAGAGTCTTGCTTTGCTTTTTTCCTCTGCAG
Seq C2 exon
ACGCCGACAACATCACCTGCTATACACCAGAAGCCCTTCGTGCCTTGAAGATGCCTGCAGCAGAGGTACAGCTGGACTCCAGCTGCCAGACCCACCTGCACAAGCAGGACTACATCTTTCTGTGTTTCATTGGCTTCTGCATATTCTTTGCTGGCACTGTGGTGGCCTGGCTGGCTGGCATCTGTGCCGTCATCTACCAAATCCACAGTTCAAAGCAGGAGGAGGAGGAGGAAGAAGAGGAGAAAGATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003443:ENSGALT00000005451:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.095
Domain overlap (PFAM):
C1:
PF0146213=LRRNT=WD(100=13.4),PF138551=LRR_8=WD(100=28.2),PF138551=LRR_8=WD(100=28.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCACCTTCAGCACCTTCTCG
R:
TGGAGTCCAGCTGTACCTCTG
Band lengths:
358-1488
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]