GgaINT0013927 @ galGal3
Intron Retention
Gene
ENSGALG00000002273 | LYRM1
Description
NA
Coordinates
chr14:15687079-15688931:+
Coord C1 exon
chr14:15687079-15687161
Coord A exon
chr14:15687162-15688772
Coord C2 exon
chr14:15688773-15688931
Length
1611 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
GTGGTGTTGGTTTGTTTCAGATG
3' ss Score
9.41
Exon sequences
Seq C1 exon
AATTGGAGCTGTAGAGTGAATAAAGTGAAGCGTTTGTTCCAAAGTGATTGGCGAGCTGGGGCTGCCTCTCTGTTCTATCACAG
Seq A exon
GTACTTGCTCCCTGGAAATACCCTACATATTTACTAGAAATAATTTCTACTGGCTAAGAGAAGTCAATTTATATGTGGAGGAATATATATGATTAGGTAAATATTTTAAAATACAGAAATACAAATGTTCTCTCGATAATCAGAGAAAGAATTTCATGTCTGTACTTCTTAAGATCCTCAATGGAGTTTATGAAACAAGGAGCCTTCAAATGATGGCGATGCTTACAGCAGAACAGGCTGGGAGTGAAGCGTCAGGAAGCTTTAGCTAAAAGCACAGAGCACCAAATTGTGCCTTTGGGTCAGCAGCTGTGCCTCTGCATTTGGTAAGGGCGGGTGTCCTGGTGGGGTCATCCCTCAGAGCTGCGTGGCCTGATCCAGAACACTCTTTGCTTTCCCCAGTAACAGGAATCACCACAGACGACAGAGAGGTGAAACGATGTCCAAGTTGCCAAGCCTCTTGCAGTGATGTGGGGGCATGTGTTAGGAATCAGATTCTGCAGTAGCTGTGGTTCTGTGCACCAAGTTCTGTGCACCAAGGTGGTGGAGGGCCTGCTCTTCCCAGAGGACAGCAGTGACCCTGCTCCTAACTGTTCTGGTCTGATGTCAGGGTACATTCAGCAACTGGAGCTCCAGGTTGGCAAGTAGGTCCTGAGACAGCCCAGTCATGTGCTGTGCTCAGCATTTGCTCCTCATCGCACTCATGCACTTACTTTGCAGCGCTGCTGCATTGTCCTTCACAGACAGTAAAGTACCTTTGACAATCCCTAAAGTCATCATTTTGGTAAATCTAATCCAGGTGGAGTGGGATCTGTCTTTGGGGAAGGAGCAGTGTTGCAGCTCCTGCAGTGTTTGTCTTGGGGATGTTTGTGGTCTGCGCTGGAGCAGTGGCACCACTTACATGACAAAGTACTCATTTACACAGAATGAGAATGGGATTTAATTCTTCATTTCTGACACAGATTCTTGGCACACCTGGAGCGTGGGTTCAGCAGGCAGCCAGCTCTCCAAAAATCGGGGAGGTCAGGGCTTTCCTAAACTCACAGTCAGTCTGCCTCCTGCGGTGCTCAGATAACATCGCTTTCATCACTTCTTCATCACATCAGACTCTGGCTGGATCACTGTTGCAGTAGCACAGCAAATGAGCTGCTCTGCATCTGGCACCGATACTGGCGTTCAGCAGCGCTGCAGTGCTGTCACTGTGTGCTTGATTCACAGATACGAAGGCAGTGGCACAGACAGGGTCAGCGTTGTTACAACACAACGGGGACACCTCAGAGTTTCGGTGACTCACCCAACGCCTGTTGCAAAATCGCAGTGAAAGGAAACACGGCCGTTCCCGAGCTGGGGCTCTGATTCAGCAAAGCACTGCAACGAGCACTTAACTTCATGCAGGAGCTCAGGCTGCTTGCATGGGGGCAGATTTAAGTCTCAGTGCCAGTGCTTTGCTGGACTGGGTCTTCAGGTTTCAACAGCGAATTGCTTTTTACAGCTATTTCAATTCTTTCTTTAGGTGGTGGAAATACTCTTACGCCAATTGAATTGTGTGGAAAAACAGTACACGTGGTGGTCTTCCACACGCACTGGGGCTTTTGTGGTGTTGGTTTGTTTCAG
Seq C2 exon
ATGACAGCAGTCATGCGACAAGAAGTGCTGGGCCTCTACCGCAAGATATTCCGGATAGCCAAAAAATGGCAGTCAGCATCAGGACAGGCGGAAGAAACTACTGCAGAGAGGGAGTACATCATAAAGGAAGCCAAAACATTGTTCCGAAAAAATAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002273:ENSGALT00000003565:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.019
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0534710=Complex1_LYR=PU(68.7=86.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGAGCTGTAGAGTGAATAAAGTGA
R:
TTTCGGAACAATGTTTTGGCTTCC
Band lengths:
230-1841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]