RnoINT0087343 @ rn6
Intron Retention
Gene
ENSRNOG00000007508 | Lrtm2
Description
leucine-rich repeats and transmembrane domains 2 [Source:RGD Symbol;Acc:1587001]
Coordinates
chr4:151375572-151381700:-
Coord C1 exon
chr4:151381110-151381700
Coord A exon
chr4:151378147-151381109
Coord C2 exon
chr4:151375572-151378146
Length
2963 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCTTCTCTTCCTGGATGCAGGGG
3' ss Score
7.4
Exon sequences
Seq C1 exon
GGATCACCTGCTGGATTGCCCTGTGTGCTGTGGAGGTGCTCCCTGCCTGCCCTTTCTCTTGCACATGTGACAGTCGCAGCTTGGAGGTGGACTGCAGTGGCCTGGGCCTCACCACTGTACCCCCGGATGTGCCGGCTGCCACCCAAAGCCTTTTGCTCCTGAACAATAAGCTGAGTGCCCTGCCAAGCTGGGCTTTCGCCAACCTGTCCAGCCTGCAGCGACTGGACCTGTCCAACAACTTTCTAGACCAGCTCCCGCGGTCCGTTTTCCAGGACCTGGTCAATCTGACGGAGCTTCAGCTTCGGAATAACAGTATCAGGACCCTGGACAGGGACCTGCTCCAGCACTCCCCACGACTTCGACATCTGGATTTGTCTATCAACGGCTTGGCCCAGCTGCCCCAGGGGCTTTTTGATGGGCTCCTGGCTCTACGATCCTTGTCCCTTCGCTCCAATCGTCTGCAGAGCCTGGACCGGCTGACGTTTGAGCCCCTGGCAAGCCTGCAGCTGCTTCAGGTTGGGGACAACCCGTGGGAGTGTGACTGCAACCTTCGAGAGTTCAAACACTGGCTTGAGTGGTTCTCTTACAGAG
Seq A exon
GTGAGCTCTACTACCCCACAGGCAAGAGGGAACTGGGATGAGGTTAGGGGGAAGAAGAGCTACAGCCCCCACCCCGAATATCGCTACTTCCTGCAGTCAGTGGAGGCCAGGTGCTGCTCATCTATGCTCGCTAAGACTCACTGAGGCTGTTCTGAAACCTGGCCTCCCTTTCTTAGGTTTCATGTGCTTTTTCTATGCTGTCTATCCCACCAGTATGCCGCTGGGCTTCCCTGATAGGACAGGAAGAGGAACAACCACTCTCCCCGAGAGTAATAAGGTCATCTGCCTCTTATATGGATGTGGGTGGGATGTAACTGAAACCCACAGACACAACCATTTTTCTGTGAAGGTGATATTAGAAAGAAATTTTGACAGGAAGCTTAACAAGCAGATGAATGGTTTGAGTTTTTCTTTCTTGTCCTTCCTTTTAAAAACACATTATCTATTTATTTGCACACGTGTCTGCTTGAGCACCTGTGCGTGTGCACAGGCCACAGAACGCATGTGATAAGTCAGAGGACAGCTTTAGGAGTGGTTCTCTCCTCCCACCAGGTATGCTCCAGGGATGTAACTCAGGTCATCAGGAATGTCAGCGGACTGTCAGCAAGTGGTTTTACCTGCTGTGCTATCCCGACAGCTCTTTATTGTTAGGTCAGAGCCTGACTCTTGGCCCAGGCCTGGAACTCATTTTGTATTCTAGGTTGAACCTAAACTCTGTGAGGCAACACCCCCTGCTCTCCTCCAACTTTAAAAAAGTTTTATCTGGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAGTTTTATCTGTACTTTATGTGTATGTGTGTGTGCCCAAGGGTATTACACACATCACATGCATGCGGTGCCCCTAGAGGCCAGAAGAGGGCGTCTCCTGGAACTAAAGTTATAGGCAGCTGTTACCCACACAAGGTGGGTGCTAGGAACTGAACTGGTTCCCCAAAAGAACAGCAAGTATTCTTGCCTGCTGAGCCATCTTCCAGCCCCCCTCTTTCTTTAATCTGAGAAAGTTCTATAGCGAACAACTGAATTGATCAAATGAACGCTTAGCCAGGCTCGTGCCTGCCATGGCAGTGCTTGGGAGGTAGGAGCGGGGATCAGGAGTTCAATGGTCAGCCTGGATACGAGGGACAGTTGAATAAATAAGGAGAGAGGAAATGGAACAGAATGGGAGGGGAATAAGAAAGTACAGCGGTGAAAAGTGCCAGATCTTGTTTGAATTTTGGCCCTGCCACCTACTTACTAGCTGTGTGATCTTGAGAAGTTAATTAACATCTCTGTGGTGTATCTGTCAAAGGGAGAAAGGCCAATTGTGAGAATTAAATAGGGCAATGCACACAAGGTGGTTCGAGAAGTGCCCGGCATAAAGGAAGTGTTCGGCGGAGCGCTGATTCACGTGCTCATTTGCATTCACAGAACTGAGAGCGCCCAGGAAGACACAGTCGGTGCCCAGCACAAGGCAGCTGTTTGGTGTATGTGGAATTAACAAATCAGCACTAAAATTCTGAAAATAACACAATGCTTTCCCTCACTCTTACCCCATTCATTTCCTACCCAGCCACTAGCTCAATATTTCCATGCTGCTCAGATGCATTAATTAAAAAGCACTTTACAAACTATAAAGTGCTCTGAGATGTTAGTCACCATGATGATTGCTGATTTTGTAAGTGGAGAAATGATTAATGCTGTTGTCTAGGTTCCAGGTTACCGATACCTTTTTGTGCACATTATCTATTTTGATCTCTCGAGCAGCTAATCAAGATAGATATCCTCACTTAGTGGCTAAGAATCCGGAGATTCAGACATAATTAAATACTTTAGTTGGGTAATTTTCAGGTGCCTCTGCAGCCAGGATTCAACCTCGAGTCTCTATGAGGTCACCCCCTTCTCACTCCTAAGCTCTCTGCCATTCAAACCAATGGTGGTCATGGTTACATGCTCACTGGTATCGGCCTTTAGGGCACACCCTCGCCCTTAATACAGTAGGCAGGAGCCAGTTTCCCAGATCCGGTCTTCAGCCTTGCACTCCTTAAAAAAACAAAACAAAACCCAACCCATATGTTTCCATCGGGACCCTGAACATCTGAGGCTAAGATGGATGGACTTAGGGCGTCTGGGCTGGCAGAGGGAGCTCTCTTACCTTACCCAGCTAGGTACTGGTACTCTTCCTCTGCCCTGCCTGGCCTGCCCAGTGTCACAAGGGTGGTTTGGTGGCCTGTCTAAACACCCTAATCAACTCCAGTCTCCTGTGTCTCCAGGATTTGCTCCCTAACTATCTCTGAGCTGACACACCTGACAAGCCCAGGAAAACCATGCCCACTTCTTGTTCACAGACGCCAAAGCCCTGTGTAGGGAAGCAGATGAGGCAGGGGCCTTGCTTTCGTTCTCTTTCTGAGAGGGGCACAGGCCAAGGCTTGTGTTGAAAACAGTGGCAGGGGTTCATAGACATCAGTGAGCAGTCAGGTTTTAGTCTGGGCTATAGATTATAGATTAGTAGATTATAGTCTGGGCAGGGGCATAGTTCGATGTACCAAAGCCATGTCCTGAGCATGCCCCCAGCAGTTACTGTAGGTCAGCGTGACCTTGGAGGGACAGGCTTGAATGAGAGGGGTGGGGGATACTCTGTGAAATAAAAGTAAAGGTAATGTCCATTTCCAATGGCTTTGGCAGCAGTGGTGGCCTCCTCTGCGACGCAGCGCTCATAGCCCTTAGTCTATCGGTGCTGGTCCCTGCCCACTCTTACTCTTTCGTAATCAAGACTGACTACATTGCTGGCGGGACTGGGCTTTTTGTGCCTTTCGTTTGGAGGTCTGGTGGGGAGGGCAGGGCACCCCAGTTCTAGATGCTTGCTCACCCCCTCTTCTCTTCCTGGATGCAG
Seq C2 exon
GGGGGCGCCTGGACCAGCTTGCCTGCACCCTCCCCAAGGAGCTGAGGGGGAAGGACATGCGCGCGGTCCCCATGGAGATGTTTAACTACTGTTCCCAGCTAGAGGATGAGAACTCCGCTGGGCTGGATGCTCCAGGGCCACCATGCACCAAGGCCAGCCCAGAGCCTCCTAAACCTAAACCTGGGGCTGAGCCTGAGCCTGAGCCCAGCACTGCCTGCCCTCAAAAGCAGAGGTACCGGCCGGTGAGCGTGCGGCGAGCCATCGGCACCGTGATCATCGCCGGTGTCGTGTGTGGCATCGTCTGCATCATGATGGTGGTGGCTGCTGCTTATGGGTGTATCTACGCTTCCCTCATGGCCAAGTACCACCGGGAGCTCAAGAAGCGCCAGCCGCTGATGGGGGACCCCGAGGGTGAGCATGAAGATCAGAAGCAGATCTCCTCTGTGGCCTGAGAGCTGAGGGTCTGGCCCAGGTAGGACAGCAAGGAGACTCCATGGGACTGCTACCAAAAGGGCTGCCCTTCCCTCCATCACAGGCCCTGTCTCAGCCTGACACTGGCACTGCCTCCCTCAGCTCCCTGGTCCCAATCTCTCTCCAAGTCTCCCAGAAGCTTCCCTGGGGCCAGCGATTCCCGTGGAAGGCCTGCTCTGGGCCTCTTGTCTTTGGGACACCTGAGCTTTCCTGCAGGCTTCTGGCCACAGGGAGGAAAGAACCTACATTAGAGACATCATCTGCACTGAGCGCTTCCCTCCTGCCCAGGGCTACCACAGTGGTGACTCCCTACCTCTTGCTCATTTCCACTTCAGTCTGCATTAGGGCCTGGGAGGGAGGGACAGGAGGCCCAGAGGTAGATTTCTGTGACTCCTTTCAAAGCCAGAAAGAGATTCTTAAGTCCTTGCAGTGGGAAGCTTGTCCAGCTCTCAGCGGCTGGTGCCAGTGTGCAAACACCCCAGCCCTGTGATCTGGGTCCAATGCTTAGAAAAACCAAAGTGACTATAATGTCCCCCTTGGGTGGATGTCATTATGTCCCTTTATTTGCTATAGACCCCTTGGACTACATTGCTCCAGGTTTATGAATTCTATCCATACTTTTTGTTCTAGCGTGAGGTTTTAAGACAGGGCCTTACTCTTACTCTAACTCACTGTCAGACACAGGGCATCTCTGTAATGGTCCTGCAGATCAAAGTCACACACACACACACACACACACACACACACACACACACACACATGCACGCACGCACGGAAACAGAGACCATGAGAACTTGGGGCAGAGACCCACTCTCTTGAACCTAGAGACCACGGCTCCTCTTACTTCCATGATTACCGTCTTCCCATGTTATCAGGGGTTGGTCCTGAACAGTAACACAGGGATCCTTTGGGACCCTTGAAAGTGGGCCAAAGTATGCAGCTGGAGGAATTGCCCATTGCCATGGCAACCCTAGCACCTCTCCTGCTAGGTTTACCAGAGGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTGCGTGCATGACAGGCTCCAGGCTTCTGAGAGCTCAGTTGCAGACCCCCTGGGCAGGTCTGGGAGCCTCCTCCCTGCCAGGTTCCAGGTACACCCAGCAGTTTCTACTTCTGCAACCTGGCTTCTCCCGTGTCCTCTGTCATCTGCATCCTTTGTTTGTGACCTCAAAGGCTGGGTCTGGGCTGTGCTCTGAGATTGGTGGCTCACCTTAAGGAAAGCAGATGTCAGGCTCCAGAAGGCTGGCTGCCTTCAACACATCCCCAACAGACTGCGGGAACGGAACAGGATGGCTACATTCTGTTCGGAGTCCTTGGCAATGGGGCTCTCTTTCCCAGGGGTTCATCAGCTCTGCCTGGTTTCCTGGGAGAGTGCAATTGCACCTGGACTACCCAGGCCAAACAATGGCCACAGTCCTACCTGGTATGGAGATTCTTTTTTTTTTTTGGTTCTTTTTTTCCGGAGCTGGGGACCGAACCCAGGGCCTTGCACTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTGGTATGGAGATTCTTACTCCTGGGCTGTGCACGTTTTCGGGGTCACTGCCCTGTCTTCTAAACTGTCCCCTCCTTAGAGACTGGATACCTCTGTAGGAGATGCTAGACTGATATCTTGCCCTGGGAAGGGTCTTGGTAGTAGCCGGATAGACACGTAGGCACTGATGATACACCTATGAGCATCAGAGCAACCTCTCAGCCCTCCTCCTGGTCCTCTGCCACCTTCTCCACTAGCAGGGGTGAGTACAGGGAGTCTCGGGAGAGCCTCCAAGGTTGTCCTCTGGCTGGTAGACAGAGAGCACAGGCTGCCGTTCAGGATCATAGGATCCTCTAGGCTGGGCCACAGCCTTCCTTCCTCTTTTGGCTGGTGGGCCAATCCCAGAACCGGGATTTTCTAAGGGCCTGGGGGAGGGAGGGTGTTGTCAGTGGTGATATCTTTAGCCTGAGACAGAAGATTTTTAAAGGCAAAATTATATTTCTGGTTTGTCGTTTCAGAAGACCAATAAAGACTATTTTCCTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007508:ENSRNOT00000010238:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.378
Domain overlap (PFAM):
C1:
PF0146213=LRRNT=WD(100=15.2),PF138551=LRR_8=WD(100=30.8),PF127992=LRR_4=WD(100=23.2)
A:
NA
C2:
NO
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
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]