GgaINT0013928 @ galGal3
Intron Retention
Gene
ENSGALG00000002273 | LYRM1
Description
NA
Coordinates
chr14:15688773-15690966:+
Coord C1 exon
chr14:15688773-15688931
Coord A exon
chr14:15688932-15690873
Coord C2 exon
chr14:15690874-15690966
Length
1942 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TTAACTCTCCGTTATCTTAGGTG
3' ss Score
7.84
Exon sequences
Seq C1 exon
ATGACAGCAGTCATGCGACAAGAAGTGCTGGGCCTCTACCGCAAGATATTCCGGATAGCCAAAAAATGGCAGTCAGCATCAGGACAGGCGGAAGAAACTACTGCAGAGAGGGAGTACATCATAAAGGAAGCCAAAACATTGTTCCGAAAAAATAAAGAT
Seq A exon
GTAAGTGTGTGTCATTGCAGGTTTCAGTTTCTGACTCCTTTTGTTGTGCTATGCACGCTCCTGGTGGCTGGATGCCAAGGTATGAATATAAAAAATGATTTCCCAGATTTCCTTTGCCATAAATGCTGGTACAAGCACATTTTAAGGCATATTTGAGTTACAGTTTATTATTTCAGGGGTGATATTTGGTAAGAAAACTCAAACCCTCTGAGATTTCCATTAACTCCTGCACAAGGTCAGGCATGTCACCTCGATGAGCACTGCCCGTACTGCGCACTGTGCTGCTTGGTGAGTGGATCCAACCACTGCCATGACGACTCAGCCAACCTCCTGCCATCTCCCCGGGAAACAGAGCCCCAAAAATGAAAAGTTGTGGTTGAAGGATGAGAGTTCAATAAAAAAATGGACAGAGGAGTACTTTTTTGCCAAGACAACTAATATGGCACTGCTTAATTTGCAAGGAAATTGTGTCTGATTTCAAGGATTACCATTTGAAAAGTCGTTATATGCAAACACATGCTGCAAATTCAGTGCACACCAAGGAATGTATTGTAAAGACAAACAGCAGAACTGAAAAAAATGTCTTCTCAACATTTTTTTTTTTAAAGTTACACCTTAGATGGACTCTAATATAAAAGCTTGTTATGTGGTAGCAAACCTGATTGCAAAAACATCATACACACTGACTGATGGTGAGTTTATTGAGCAATGGACAGAAAGTGTGGCAAATACAATTTGTTCTGATTAAAACCCACAGTTTTCTAACATTGGTTTGTCTCACCAGACTGTAGTCAGGTGAAGTGCAGAAATAGGAACATCTATCAGATGAAATTTGGAGGGTAGAGCTGCTAATTTCAAATTTTAACTTTTGGTGATAGATGAAGGTACTGATGCTACAGCTATGCTCAACTTGTTTTCATTTGAGGTACTGAGAACAAATATAATGTCCTTGAAGAAATGGCTGCTTTGGTGCCATTAAATGGCACAACTCAATTTCTTGATTTGTATGAAGCTGTACAAACTACATTGAAGTTATTTTCTTTAACCTTTGTCAACATATCTGGTACAGCTACTGATGAAACCTGGCAATGGTTGGTAAAAAAAAAAGAAAAGAGGGACTTAGAAAATTGATAGCAGGACTGCTCTGAAAGCAGTGCCTTCTATTGGAGGCAGCTCTGACTGTTGGTGGGATGGCAGCAGAGGTTGGACTCCATTACTTTTTATTGCCATGTGACAGATCTGACAGAATGGTGTCTGACATGGAAGTGTAGATGAAGGAAAGTGGTGTCATTGAATTCCTCCACCTGGAAAAATGGCACCCACTGACATTCATCAACACTTGTGAACACTGATGGAGATTTTTCTTTACCAAGTAGTGTTACTTTGTTCTTTGTAGCTGTTGTCGTTTCCTTGGAAATAATTAGGAGGCGTTCTATCAGAGTGCCCTCTGCAGCCATCTGTCACATGGCAACAAAATGAAATAGGAGGCATTACTTTTGGAGCAGGCATTGTAGCCCAATTCAGTGCAGGACTAAATTCAGCTGATACAAAAATCAGAATTAAGTGCAAATGAACACTACGTTTCTGACTTCAGTGTGAGTTTCAGGACAGAATGACACTCACGTGTCGCCCCTTGTTGTCTTGCAGCGGATGAATGCGTGAGCGTGCCTTTTCATGGAGGTAGTGGTAGTTTTTGCGTGTATTGTCTTTTTTACAGAGAAAACACCAAAGTTGAGTAAAACCTCTTCTACTCTCACAGTTCTGATAGCCTCTGGGCACTGCTACTCAGTGCCATTGAGCTCAGAAGTGCAGATGTGAAAAACACCATCACTGTATCCTTGGAACTGCAAAAAGGAAGGGAAGGGAAAAAAAAGGTTTGAGTTTGAAATGCTGATTTTTGTACTTGTACAAAATATTTATTTTTAACTCTCCGTTATCTTAG
Seq C2 exon
GTGATGGATCCAAAGCTGATTAAGCAGTGCATAGACGAATGTGAGGCAAGAATACAAATTGGACTTCACTACAACATCCCCTACCCAAGACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002273:ENSGALT00000003565:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0534710=Complex1_LYR=PU(68.7=86.8)
A:
NA
C2:
PF0534710=Complex1_LYR=PD(28.4=61.3)
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:
GCAGTCATGCGACAAGAAGTG
R:
AGGTCTTGGGTAGGGGATGTT
Band lengths:
246-2188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]