GgaINT1017235 @ galGal4
Intron Retention
Gene
ENSGALG00000002273 | LYRM1
Description
LYR motif containing 1 [Source:RefSeq peptide;Acc:NP_001155848]
Coordinates
chr14:14974997-14976954:+
Coord C1 exon
chr14:14974997-14975089
Coord A exon
chr14:14975090-14976633
Coord C2 exon
chr14:14976634-14976954
Length
1544 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
GATGGGATTTTCTTTTCCAGATC
3' ss Score
9.94
Exon sequences
Seq C1 exon
GTGATGGATCCAAAGCTGATTAAGCAGTGCATAGACGAATGTGAGGCAAGAATACAAATTGGACTTCACTACAACATCCCCTACCCAAGACCT
Seq A exon
GTGAGTATGTCTGTTCACCATAGGTGCACCCCGTTAGCTCCCACTCAAATCATAAATCCATACTACTGCCGTCACACCACACATCCCACCTGTGTTCAGGTACTCTGCTAAATCAGAGCCAGGTAAGCCAGTTGCATGCAGAAACTCTCTCTCATCTCGCTGTTAGTCAGCTCGTTTCCTCTCGAGGAGTCCCCACTGTCATTGTGTGAGTGGTGTTCTGGGGGCTGTCATCATGTGGGCAGCTTCACTGCAGAGAAAGATGGTAACAGAATTAAATCCGTTTGTTCGTCTTTTCACATAACTAAGAGACTAGAACAGAATAAAACTATTTAATTACATGATATATGTCACAGACCTAATCATTTTCATGGCCTGTGCTGCCTGTAACTATTCTCCTTGGCATAGATCAGGTCTTAGAAAACATCTTCCTGCCTTGCTGCTTCTTTTCACCTGTCCCTAGAGAAAAACCTGCCCAAGATGAAGGAAATTAGTGAAGGTGCAGCAGTGTCTTCTGTTGCACCAGGCAATATAGTTTCCTCAGTGTCCAGCTGTTCCTGTCCATATTACTACACACTGCCTCCCACAGGCACTGCCTTTGTTCTCCTGCTGATTAGTTTACATTTTCACACCAAGAGTTTCCTTACCAAGGTGGCTGTGGTCCAAATTAATCTGCATCTTATTGGATGCTTGCCTAAAATATGGTCACTTTTAGCATATCTTGCACAATACAGCTTGCTTTTTTTCTCCACTGTGCAGAATAACAGTGCGCATCTGGCATGCTGTGATCCTAGAAAAAATCATCAGAACATATGCTTTGCATCCACTTCAAAACCTTCAGGGATAGTCCTGTATCAGTACTCTCATATAAACTAGGCCATCAGTACCTTTATTACTATTTGCACATAAAGCGCTGTCTTAAAGGGTGAAGCTCCAGCAGCAATAGCATCTACTGCTGACACTGACCTTTTTCCCATCACCTGGGGGCATACAGCTGCATGACTCCCACTGTGTAAGGACTGTCAGGCAGAGGAGAAGCTGTTACCTGTTGCCCCATCAGCTTCTGGAACCAGTGACACTGGCTGTGCATTTTCATATGGCATATATGATGATAACAATAAGAAGGCAGATGTGGCTTGCTGCCTAGGTATGAGGAAAGCACACTGCTTTAAGACTTCTGCTCAGGAACTTATTGGGTTTTCTGGGTCTTGCTGTTGTGGAATGCTGCCTACAGACATATTTCAGCAATGTTATCATCACAATCTGATTTCAAATTGCAAACTAGAATTAACAAAACCTCAAATATACAGGATTTTCTTAAACCCAATGTTTAAGGCCTCAGAGTCACACCACTAATCATTCTTCAGAGAGTTCTTTGCCCAGAAATCTAATAACCTGACTTCAGACAGCATGGTTGTTCTCTCCAAAGAGTGAAGGAATTATTGAAAACTCAATGAAATAGTATGTGTATATGCTTTTCTTTTTTCTTCTTTTTTTTTTTGGTAGCCTCTCTGTTTGCACCTGACTGATGGGATTTTCTTTTCCAG
Seq C2 exon
ATCCATCTGCCTCCCATGGGTCTTACCCAGAAACAAGGCCGTACATTTCGACACCAGGAAAAGCTGAGGAAGATTTCTAAGCCAATATACCTGAAATCCCATGACGAAATTTCATAACCCATCATTTCAGCTGTGATGTGTTGGGACTGCAGTGCAGGTGGTTTGCGTGCACAGCTGTGAATGAAGCTGTTCTGGTCACTTGCTTCCACATCACCTGAGGCCTCACCAGAAAGCTATAGATGTGACGCACATGATGGCCAGGGCTGGGCAGGTATTTGCTACAGCTCAGCCACTGACTGATCAATAAAAGTGGCACTTGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002273:ENSGALT00000003565:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.289
Domain overlap (PFAM):
C1:
PF0534710=Complex1_LYR=PD(28.4=61.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCATAGACGAATGTGAGGCA
R:
TGTAGCAAATACCTGCCCAGC
Band lengths:
350-1894
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]