RnoINT0087342 @ rn6
Intron Retention
Gene
ENSRNOG00000007508 | Lrtm2
Description
leucine-rich repeats and transmembrane domains 2 [Source:RGD Symbol;Acc:1587001]
Coordinates
chr4:151381110-151384353:-
Coord C1 exon
chr4:151384221-151384353
Coord A exon
chr4:151381701-151384220
Coord C2 exon
chr4:151381110-151381700
Length
2520 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TCCTCCTGATTCCTCCCTAGGGA
3' ss Score
9.84
Exon sequences
Seq C1 exon
GACTGACAAGTGGCACATGCTGAGGGGCTCTCTCACTTCAGAGCTGCAGAGAGTGTGGGCTTCACCATGTTGGCACCAGGCGGTGGCCCAGAGCAGAGGAGCAAACTTGTCTTGCAGTGGAGACAGCTCTCCT
Seq A exon
GTGAGTATGGGCCCAGCCTGGGGGGTGGGTCGTGTGTATCTGATAGGGTGACAACATGATGTCTGACCTTCCTGGATGCCTGGGGCTTTGCTTCAGAGGCCTAGACTCATGCCCTTGTTAAGTAAAGATAGTCCATGCAGAGTGCTTTCCAGAGGCTGGGAGGAGGAGGCTAAACAGCTGGCTCTGCCCCATGTGTCTCCTTCTCTGGCAGTCACAAACCAAGAGTTCTATAGGAGAGCCATCCAGCTTCACTCCTTTTAACTGGGATCTGCAGTGTGTGCACCAGAGTGGAGAAATCAGCCCCAGAAGGGCCACAGTGCCAGCCAGCCTTGGCTATACAAAAGCTACCTTCACACTTGGCCTCAGCCATCTTGCCTGCTAGATGAAGCCAGAGGCCCCAGCAGGATCAGTATGCTGCAGAGTTCCCAGCTCTGTAGAGACACTAGGGAGTTCTTGGGGGTGCAGCAGTAGAAGAAGGGGTCATAGGGAGGGGATTCATTCCTCCCTCAACACACAGCACACTAAGGTAGCGGTGTTAGTAGACGCAGCCTTGTCTGTCCGTGAACATTCCCTTCAAAGGGACAAGGTCAGCCATGGCTGGTTTGCCCACAGCTACACAGTAAGAAGTGAGAAATGGCCAAAGGGACATTGCTCCACGTGACCTGCCCTGGTCTTTAGTCCAGGCGCCCTGACAGGGAGCTGCCTGAATTATTCACCAGGTGAATGGCTGATCCAGGGGCTCAGATCCCTTCCATCCCGGGTCACTCTGACACCTCTCAGTGCAGGAGTATGTTTTCTTGTCACTAGAGCTTTGGTGCAAGTCTGAATTTGGTAATGGGGAGGGGGTGGAGGAGAGGAGTGAGGGTTCCTCCCTCCCTANNNNNNNNTGCCGCTGACTGTCCTTAAGGGGTCCCTCTCCTTTCCTCCCCTCTCCCTCCTTTTCCCTTCCTCTCCTCCCTTCTCCTCCCCTCCCCTGTCTCCCCTATCCTTCCCTCTGGTCTCCTCTACTCTTTGGTTTCTCTCTCCTTTCTCTCTTTCTCTTCCTCCTTCCACACCCCCTCCCTTCCTTCTTTCATTTTCTTTAGATAGCTGTTAGATAGCCCAGGTTAGTCTTAAACGAGTGATCTTGTCTCAGCCTCCTAAGTGCTGAAAACAAACGTGTGCACCCCACTTGGCTCCTCCTTGAAAGTAAAACATGAAGAGGGTGTGTGCATAAAGCAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGCGCGCGCGCGATGGGGCAGGCTGACCCTGTAGATGGGCTCAGAGGGCTGGGAGGTCATTTCAGGTGGCCTCAGGTCCAGGGAGAGGTCTCCAGGTGACTGTATAACTAAGCTGTGCTCATTTTCCGCCAAAGTAGCTCAGATGTCGGCTTATAGCACGTTCTTCACTGTCATTAATCTCACGAGGGAGGGCAGGGAGAGTGTCATCCTGTCCTCCCCTCAAACTCTGCCCTCTGGGACTTTAGATGACCAGACATCCAGCAGACAGACTGGAGACTGTCTCATCTTGGTGCCCTGGCTGGGTTGGCTGTTGGCCATCCAAGTAGGGCCATCTGGGAGGTGACTGGCTTTGAACCTCCTCAGGTCTCCATCTGGAGGCTTTTCTTGGGACTCTGGGTTGATGCAACGGAGACAGAACTGTGTGAGCTTATTTTTCCGGGTACCCGGGCCTCTCTGGCACTTGGGGCAGTGGGCCTGACTACAGGCCTGCCATCAGAAAAGGTTGCTTTCTGGGGCTCACTTCCAGCAGCTGTGCCCAAGGTGGACCCATAAATTCTGCTCAGGAGAGTCTTGGGGAAAATAACAGGACATGGTAGGAGCCCTGTTACTTGATCCACCCAGAAATGCTACCTTGCCCACTAAGGCTAGAAATACGGGATGGGCTTAGCAGCTTCAGAGTTCAAGTGCAGACGGAGCCACTGCTGGTCAGACTTCTAGTGTTGCAAGCTGTGTGCTGTAGTGTGCGTTATCATCACAATGCACTGATGCAGGTCCTAGCCGGGCCTGGGTCCCACCTTAGACTTCAGACGCTGGTAAATGAACATCGTTTAAGATGCTGCAGGGAACATGCTCCACTCCCCTTTCATGCCCAAAGCATCTCAGTGTGAGGTGGGCTTTGGGTGGGGGTGAGGTTCCCTCGGGAAGGACCCAGCCTTGTGGCCACGGACTTTGAAAAGTTCCCCTGGTATTCTAAAATTTCATACTTGGTAAACAGCCGGGGCATTAGGGCATCTAGGTTCTGAGACACTTAGCAGTGGAGGTGTGGAGTGAGGACCTGCATGGCTTGTCTCCACTGACAAAAGTGACTTCCTGGTGACAGTGTGATGCCCTTGAACATGGGTGTTTCGGGCTCCTGAACACTTTCCTGTGTGGTCAATAAATACCTGTGATCCTACTGTAGCTTGTGTGTGAGCCGGGAAGGGGGAAACCGAGGCAGGAGTCTGAGCCTCTTACTCCCTCCTCCTGATTCCTCCCTAG
Seq C2 exon
GGATCACCTGCTGGATTGCCCTGTGTGCTGTGGAGGTGCTCCCTGCCTGCCCTTTCTCTTGCACATGTGACAGTCGCAGCTTGGAGGTGGACTGCAGTGGCCTGGGCCTCACCACTGTACCCCCGGATGTGCCGGCTGCCACCCAAAGCCTTTTGCTCCTGAACAATAAGCTGAGTGCCCTGCCAAGCTGGGCTTTCGCCAACCTGTCCAGCCTGCAGCGACTGGACCTGTCCAACAACTTTCTAGACCAGCTCCCGCGGTCCGTTTTCCAGGACCTGGTCAATCTGACGGAGCTTCAGCTTCGGAATAACAGTATCAGGACCCTGGACAGGGACCTGCTCCAGCACTCCCCACGACTTCGACATCTGGATTTGTCTATCAACGGCTTGGCCCAGCTGCCCCAGGGGCTTTTTGATGGGCTCCTGGCTCTACGATCCTTGTCCCTTCGCTCCAATCGTCTGCAGAGCCTGGACCGGCTGACGTTTGAGCCCCTGGCAAGCCTGCAGCTGCTTCAGGTTGGGGACAACCCGTGGGAGTGTGACTGCAACCTTCGAGAGTTCAAACACTGGCTTGAGTGGTTCTCTTACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007508:ENSRNOT00000010238:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0146213=LRRNT=WD(100=15.2),PF138551=LRR_8=WD(100=30.8),PF127992=LRR_4=WD(100=23.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]