GgaINT0109360 @ galGal3
Intron Retention
Gene
ENSGALG00000013009 | LRTM2
Description
NA
Coordinates
chr1:63147240-63150405:+
Coord C1 exon
chr1:63147240-63147831
Coord A exon
chr1:63147832-63149950
Coord C2 exon
chr1:63149951-63150405
Length
2119 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
TATTATCTCTGTTGGGACAGGTG
3' ss Score
7.42
Exon sequences
Seq C1 exon
GTGCTCGGCTGCTGGCTGTCGCTGTGTGCTGCAGAGTCCTTCTTTGCCTGCCCTTCCTCCTGCAAGTGCAACAGTGGTATCCTGGAAGTGGATTGTAGTGGCTTGGGCCTCTCTTCCATCCCCTCAGACATCCCCACAAACACCAGGACCTTCCTGTTTCTCAACAACAAACTCAGCATCCTGCCAGGACCAGTGTTTTCCAATCTCTCTGCCCTGCAGAGGCTGGATCTATCCAACAACTTCTTGGATCAACTCCCACAGAACATCTTCAGCGACCTGGGGAACCTCACAGAGCTCCAGCTGAGGAACAACAGCATCCGGGCCTTGGACAAGGACCTTCTCCAGCACACGGCCCTGCTGCGCCAGCTGGATCTCTCCATCAACGGCCTGGCCCAGATACCCTCGGGAATCTTTGATGACCTGCCTGCTCTCCGCTCGCTCTCGCTCAGGTCGAACCGCTTGCAGAGCCTGGACAGGGTGACCTTTGAGCCGTTAACCAGCCTGCAGCAGCTCCAGGTTGGGGACAACCCCTGGGAATGTGACTGCAACCTGCGGGATTTCAAGCACTGGATGGAGTGGTTCTCCTACCGAG
Seq A exon
GTAGGTGCTCGTGCAGAGGGAGTGGAGCGTGCAGGTGTTAGTTTGCTATGGGAAGGGAGGAAAAGCAAGCAGACACAGCTGACAGATCAGAACGACCTAAATTCTGGATCTTAGCCAAGGAGCAAGAGTACAGTGCTATAAAGCTGACTGACAGCATAACACTGCTGCACCTTCATAAAGTAATGCTGCCAGGCTTGAGAATCCTCTGCAGCCTCAGGCTCCCCAGTTCCTCATTTTGTTTCGAATCCCAAAGATGACTCTTTTTTTTCTTTGAGAGGAAAGTACTTCCCTCAAATAACTTCAAAACTTTAGGATTATAAAAGTTCCCCTCACCCTTTGTGCCTAAAGAGAAGAAATGCTTTTCAAACCTGAAAACAACTGTCCAGGTCTTCTCCTTAGGCTGGGAGAACTACAAGCTGGATTTGGCTGTGAAGCATTGGGTCTGCTTTCAGCAAAGGGACCACAGGAACAGTGCTGCTTTGGAAAATATTACAACTGATACTGGCAAATCCAAAAGCTCAAATTAATAATTCAGTCCCTAAACCAATATTTCAAAATGAGTATTTTTTGACAAGTTTGTATTTACAGCTTATCCTTAAGGTCTGTATCACGTCGCAGGAGTTCTGACGGATAATTTCAGGACCTGCGACTCACAGCAAAATGGCACATCTTACAGGAATGACGACGGAAGGCCTGACCTTCTGTCACCGCAGCCAATGAGCAGGAAAGGGTCTCAAATCATGTGGATAGCAGCAGTCAGCTGTCACATCCCTGCTGATCACAGCCATGCTGCAAAGAGATTATCTACGCCTATGGCTAGACTGCAGTCTGATATACACATTTGTGTGAGCAGAATCAAACAAGCATATGAGCGTCACTTTTCTCTTTTTCGTTTTGTTTTGTTTGACTCTCAGATCAAGCAGTCCATGAAAAGCACGCAGAGGTTTTTGTTTGTTTGTTTGTTTTCGTTTTTGTTTTTTTCCCCCAAAAAAAGAATTTGCCCAAACTCACTCAAGCATTTGTTTCAACATCTGTCATATTTCTGTAAGGGAGGGGGGGGTGGATTAGTTGTTAGAAGATGGCACTGTGTAGCTGCTGTTATTTTGAGAAGATAGGGCCTGGCCCTATCTTTTTCTTTAATTTCCCCCTTTCTAAAACGATTCTGCTGACACTTATATAACTCAGTAAAAAGCATGAGACTGACTTAATAGATGGTTTCAGAGGGCTTTCACATCTTGGTCTTAAAGATGCCTACACAGATATCAAGCATCATGAGCTCTACTGTCAAATTCCATCTAGATAGAAGTATCCTAGCCAACTGTCATGTTTCAAGCCATTCCCTTGATGGCGGCCTAAGGCATGCAAAACATCTCTAAATCAAGCAGAACAATCATTTTAAAGGATATCATCAGGTGCACACCTGCCTGGTGCATGGAGGTGCAGCCATTCCTCCTGCTCTCCACCCTTCAGAAGGGCTATGGATCTGGTAGCATTTGGAGGCCTGCAGTACATCTTGACTTCAGTCTTACCCCTGAAGTCTAGATACATACTGTGCAAGACTGTGGCTGCATTTGGGGTAGGGAGAAGATCTCTGAATATTCTGTTCACCCAGTAATGCGTTCACACAAGAGGGACTGGATTATATTTAAGATGAGATGTGCTGGCCTTAAGTTGGGCCAGGCGAGGTTCAGGTTGGACATTAGGAAAAAATTCTCCGCAAAAAGAGTGGTGCTGCATTGGCACAGGCTGCCCAGGGAGGTGGTGGTGTCACTGCCCCTGGAGGTATTCAAGAACCGTGTGGATGTGGCACACAGGGACATGGTTAGTGGGCATGGTGGGGATGGGCTGACGGTTGGACTAGGTGATCATAGTGGTCTTTTCCAACCTTAATGATTCTGTGATTCTATATGGCCTCAGAGCTATACTGAAGCAGTCCTCCACTAGAAAACCATTATGCTGCTGCACTTGACTTCCGCGGGACAAATCCTTGTCAGGTGTGAATGGAGACACAGGAACTTTATCTCACCTGAGGATTTAGTTCCGTTGTCCTTAAATGCTATGCCATAGCCCTGCATCAGGATGAAGCTGTGGTTCACTCCTATTATCTCTGTTGGGACAG
Seq C2 exon
GTGGGAAAATTGACCAGCTGGCGTGCACTCTGCCCAAGGAGCTGAAAGGGAAGGATATGCGAATGGTGCCCATGGAGATGTTTAACTACTGCTCACAGCTGGATGATGAGAACAGCTCCACTGTGCTGGACAATACTGGCCCACCCTGCACAAAAGGAAGCCCGACTCCCTCCAAAACTAAATCGGGCCCAGAACCAGAAGTGGAGCCCAGCGTGGGATGCCCTCAGAAACAGCGATACCGGCCTGTGAGTGTGCGCCGGGCTATTGGCACTGTGATCATCGCAGGGGTGGTTTGCGGCATTGTTTGCATCATGATGGTGGTGGCGGCCGCTTATGGCTGCATCTATGCCTCCCTCATGGCCAAGTATCACCGGGAGCTGAAGAAGAGGCAACCGCTCATGGGTGACACAGAGGGTGAACATGAAGAGCAAAAACAAATCTCTTCTGTGGCATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013009:ENSGALT00000021245:1
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=0.364
Domain overlap (PFAM):
C1:
PF0146213=LRRNT=WD(100=15.2),PF138551=LRR_8=WD(100=30.8),PF138551=LRR_8=WD(100=30.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]