GgaINT1017075 @ galGal4
Intron Retention
Gene
ENSGALG00000003443 | LRRC52
Description
leucine rich repeat containing 52 [Source:HGNC Symbol;Acc:HGNC:32156]
Coordinates
chr8:5451457-5453489:+
Coord C1 exon
chr8:5451457-5452111
Coord A exon
chr8:5452112-5453238
Coord C2 exon
chr8:5453239-5453489
Length
1127 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGCTTTGCTTTTTTCCTCTGCAG
3' ss Score
-0.9
Exon sequences
Seq C1 exon
GCTGAGCGGTGTGGGAGCGGCAGGCAGGCCATGTCTCCTGCAGGTAGATGGCAGCCCCTGAGCCTCGTGTTTCTTTTGGGGATGGGGATGGCGGCGGGGGATAGCAGCTGCCCGAGCGGGTGCAGCTGTCGGTACCTGGAGGTGAACTGCACGGGGCGGCAGCTGCAGGAGTTCCCCACGGCCATCCCACTGGACACGAGGCAGCTGATCCTGGCGGCCAACAACGTCTCGTACCTACCGGCAGTGGAGCTGAGCTTCCTGGCGGATCTGGTGTACTTGGACTGCCAGAAGAACCTCCTAGGGGATGACCTGGATTTCACTTTCATCGGCGTGGTCAAGCTCGTCTACCTGGACCTCAGCTTCAACAACCTGACGCAGGTCACCTTCAGCACCTTCTCGCAGCTCCTCAGCCTGGTGGTGCTGAAGATCTCAGACAATCCCAACCTCGTAGCTATCGAGAAGGATGCTTTCGCCAACAACACCTGGCTGAGGCACCTGGACGTGAGCCGGACTGGTTTAACGTTCCTAGATGCCAGCACCGTCCAGGACCTGCCCAACCTGAGGTTTCTGGGGCTCTCTGACAACCTGTGGCACTGCAACTGTTCCTTTTTGGACTTCATCACCTGGATGACAGAGAGCAGTGTTCATTTTCCAG
Seq A exon
GTGAGGGCTGTGTGAGCAGGATCCCTCTTCTCCCCATTCTGTTCCCGTGTGGAATGGACAGGGCCCTCTGATCTCTTTGCATTCAGCTCGCTGGGGCTGTGCCACCGCCTGTCAGCCGTGCATCCCATCATCAGGTGTTGCACAAAGCACTGATCGGAGCGGCTGGGCTGCACACTTCTCCACCCTCAGTCACACTTGCTCACATCCTCGGGACACTAAGGGAGGTACAAAACGCCTGGCAGCAGCCTCAGGAGGTATCGCTGTGCCTGAGAGTCACAGCACTCTGCGGCCACAGTGCCAAGAATGAGGAGCTGGCTCAGGGGAGATGTGCTCTGGGAAAGCCACTTCTCTGACTGTCCTTTCCTCCATCTGCTTTGATCTTTTGTTGCTGCTGCAGTGTTGTGTCTGTAGTGGTCAGTTGCCCCCCTTCACGATCAGTAGAAATGCTTGCAGTGCTGGTCTGTTCCTCCCTCTTCTCACCTCCTTGGCACAGCCTCTCCAGCCCTGGGCTCTCCTCTGTTGCTCCTGTCCCATTAGCTCAAATACTGCCTCTGTTCAGAGAGAAAAGCCAGCATCTATTATCTCACAGCCTGTACTGGAATACGACAGGACATAGGCAGTACTTCCATGGAACTGAATCACTCATGAGTTTCTTATCTCTCACAGAGCAGGTGAGACTGTGCCTAATTGCAAACCATTCTAGTTTTCAGACTTGACTTATTGCAAACCTTATTGTTCTAGTCTAAAAAGGCCTCTTTCCCTTCAGCCTTGTCTCTTAAGAAGGTGTTTGAGGTTTTAAACTAATTACAGATGCTCTCATATTGAAACAAAAGTGCTCAATCTGCAGAGATGAACAGCGCAGCTACCGCACTTTGTCACAGTGCCATAATCCAAACAGAGAGATTCTCTTACGGAGGCATCGCCACAGCAGTCATTCTGGCAGGCTGGTGGTTGTGGCTTGGCCAAAACCTGGCTGATTTCTCCTAGGCTATGGAGGGAGAAGGACGTGAAGTCTGGAGAAATTTCCCAGGAGTTTAGCAAACTCCTCCATCACTTTTCTAGCAGGACTCCTGCTCACCGATGCCTTAGACACAGGCAAAAGAGTCTTGCTTTGCTTTTTTCCTCTG
Seq C2 exon
CAGACGCCGACAACATCACCTGCTATACACCAGAAGCCCTTCGTGCCTTCAAGATGCCTGCAGCAGAGGTACAGCTGGACTCCAGCTGCCAGACCCACCTGCACAAGCAGGACTACATCTTTCTGTGTTTCATTGGCTTCTGCATATTCTTTGCTGGCACTGTGGTGGCCTGGCTGGCTGGCATCTGTGCCGTCATCTACCAAATCCACAGTTCAAAGCAGGAGGAGGAGGAGGAAGAAGAGGAGAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003443:ENSGALT00000005451:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.119
Domain overlap (PFAM):
C1:
PF0146213=LRRNT=WD(100=12.8),PF138551=LRR_8=WD(100=26.9),PF138551=LRR_8=WD(100=27.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCTCGTCTACCTGGACCTC
R:
ATAGCAGGTGATGTTGTCGGC
Band lengths:
345-1472
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]