GgaINT0056419 @ galGal4
Intron Retention
Gene
ENSGALG00000028582 | LMO2
Description
Gallus gallus LIM domain only 2 (rhombotin-like 1) (LMO2), mRNA. [Source:RefSeq mRNA;Acc:NM_204271]
Coordinates
chr5:17708714-17714603:-
Coord C1 exon
chr5:17714388-17714603
Coord A exon
chr5:17711840-17714387
Coord C2 exon
chr5:17708714-17711839
Length
2548 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
CTCTGCTGTTGTTGTTTTAGGCT
3' ss Score
10.79
Exon sequences
Seq C1 exon
GGAGCCGGTGGATGAGGTGCTGCAGATCCCCCCCTCGCTGCTGACATGCGGGGGCTGCCAGCAGAACATCGGGGACCGCTATTTCCTGAAGGCCATCGACCAGTACTGGCACGAGGACTGCCTCAGCTGCGACCTGTGCGGCTGCCGGCTGGGAGAGGTGGGGCGGCGGCTGTACTACAAGCTGGGCAGGAAGCTCTGCCGGAGGGACTATCTCAG
Seq A exon
GTATGCGGCCTCCCAGCCAGCTTCTCATAGAATCATGGAATCGTGTGAGTTGGAAGGGACCTTAAATGCCATCTGGTCCACCTCCCCTGCAATGAACAGGGACGTCTACGCTAGATCAGGTGCTCACAGCCCCATCCAGCCTGACCTTGGGTGTCTCCAGGGATGCGGCATCCACTGCCTCTCCGGGCAACTTATTCCACTCACCTCCCCTTCTTTCTACCATTTCAGCTTTGTCTATCAATTTGAGGTACAGCTAGTGAACAAAGAATCATGCATAATTCATTTTGGCTAATCTTAGATGTAGAGTTTAAGAGTAATGGGGTTTGCTCAGTGCTGCTGCTCCCCAGATAGCTGGATGCTGACTGAGCCATGTCAGCGTGGGGTTCTGCCAAGCAGAAATTGGGCAGCAGTGATGAATTTCAGGAGGACCTCCCTGCCCAAGCTGACCGCAAGCCAGCTCCCCAGAATGGCTTTAAGCAGTTCTCTGCCACTCCAGGCATTGCTGTGGGGCTGAAAGTTATATAAAAACAGGTGCTGAGATTGGCTACTGATGAAAGATCATTTCGTTCTCTCATTTAAGAACACGGTATCCAAGGTAACTGAATTTAATTCATTTTCCTGATGTGGTAATGTCAGCCCTGTAAGAGACGGTTGATTCCTCCAAGCAGTGGGGCCGCTGTACTTGTTTGGTTCTGAAGTGAGAGCCTTTTGTACGTGGATCGATCCATGTCTTTTTCTGCATCACTGGTAACTTACTGGGAGCACTTCAAGCAGAAGGACATCATGTGCTGGATGTGCAGTGCGCAGCTGCAGCCGGTGCAGGGAACTTTGGTCCTGTTAAGTTGGACCCCACGGAGTTTTCAGCAACATCTATCTGCCTATCTGATTTGCCATAATTGTTAAGTAAGAGTTAGACTGGGAATAATAGATTTCACAAAACATCCTTAATGAAGGATCTCTGTGTTCTCAGTTACAAGAGAAGTGTTTCGATCTTAGCTGCGCTGGCTGTATCCCATTTGTCCCAATGGATCCCTGATGTTGCAGGAAGTTTGTGGAACAGGCTGAAGACACTGCATATATTTTCAGCTACCTTACTGAAGTCTGCAAAAATTAAAGCAACATCTCAGAGGAGCTCCTATGGATTGTGTTCCAGAACTTACCAATGGGAATTTGTCTGGGCAGAAATGGGACCACTTGTAAACACTCAGCAGACATCATGTTCCAGCAATGAACCAGTGTTAGCTACACTTCCCAGATACTTTTTGTCTTAAAAGGGAAGCAAGAGAAAATATGTCAGTGCAGCAATGTATTTTCTTGCCATGAGATGGAATGTTTTTGTTTATTTAATAATATAACAGGATATCTTCCATCATTAATGAGACATCTTGCAACATTTGTGTAACCTTATTACTTTAGTTGGGCAGAAGTAGACACTGACATCTCCTGGTAGACTAAAGAAATGATGTCTTCTACCCTGAAAGAGCCCTGCAATAGGTATTCCATTTCCAGTTCAGGATATATGAAGCAGGCACAGAAGTGAAGCATAAGGGGTGGACAAAATCTTTCTGAAATTAGTATGGATGCATAGAATTCAAAGTCAGTGGGTGTATTCTTTACACAAGTAATCGGATTTCTCCCTCCTTCTAAGAATATACATGATAATCGTAGCGGTCTTCTCCAACCTAAGTGATTCTATGATTTTATATATATACATGCTCTGTATATGTCCCTTATTTATTAATGATATGACTTCCAAACTCTGTAACCAGCAGGCTGTGTGAAATGCTGCTGTTCATTTTGTCATCACACATGGCTGAGTATGTTGCTTTGCTTCAGCTGAGAATGCTGGCACATGCTGTGAGGGGGACACACACGTGGTGCATTTGCTAGGGGCTCCTTTTAATAGAAAATACCATACCGATCTCAGCAGGGAATCTCAATCTGCTTTCAAAAAGAGCAGTCCAGCACATAGAATTTTCTGGGACACCAGAGTACCTGGAAGGTCTTAGCCTGTATCCTGAAACCCAGCAGGAGTGATTTCATGAATGCAGAAATATTTGAGTTTGAAAGAATCTCAAATGTGAAAGCAATGAATGCAGACAGTAGAACATTAAATCGTAGCTATGTCATAATGTGGCAACTTTCTCCTGTGAGCCACAATAGCAACAGCTGAAGATAGGCAAGATTTATCAACTGAAAGGTAATTACTGTTGATGGTATAAGAGGAAGTATTAGCATCACACAACTTTATGCTATGATCTGGTGAACCTTCACTCTGCTTGAAGCTGCTCAATGTTTCAGGATAACGTAATTGATCACAGAAGTCAATTACCTTAGAAATAAGTGAAGACCTTGGATTTTCTGCCCCGGTTTTTGTATTTTAAAGGTCTGAGTTCTGCTCAGCAGCTTTCCGTGTGACCTCTATGTATCTTGGCAATAGTAGGACTAATGAGGCAATGCACTGATGTTGTGTTCCTGTTTTGACGATTTTTTTCCCCACCTCTCCAGCAAAGGAACTGTAATTACTTCTCTGCTGTTGTTGTTTTAG
Seq C2 exon
GCTCTTTGGCCAAGACGGCCTCTGTGCCTCCTGTGACAAACGGATCCGGGCTTATGAGATGACCATGCGGGTGAAGGACAAAGTGTATCACCTCGAATGCTTCAAATGCGCGGCCTGCCAGAAACACTTCTGTGTTGGGGACAGATACCTCCTGATCAACTCGGACATAGTATGTGAACAGGACATCTATGAGTGGACTAAGATAAATGGAATGATATAGCAAAGAGGTGGCTCATGATCTATAAAAAGACATCTCACGGGTGACGCAGACACGTAGCTGCAATGAGGAGATAACCACCTGAGCTATGTGCTTTGTCTAAAATGGGGGGGAAATACCACAGAGTAAGCCCTTTTCAGGCAGTGCTACGTAGAATCTAAACTACATATAAATGAAGAAGGGAGACTGAAGCAATAGTAGATAGACTGACTTCGGCTAACAAAGGCGTATCGACAATAACTGACATCAGCCAGATAGGCAAGAGCTGGGGAGCAAACACGATGTGATAACGAATGCTCATAACTGGGAAAACAGTAGTGACTTATGTAAAGAGATGTTATGACTTTGTCACCTGCAGACTAGGATTGTGCAATTGACTTTTCTTTTCAACTTGTTTTAGTTACTCAGTCTAGACAACTGCTCCTAATGTAGACATGAAGAGGAATACTGGTAAAAAAAAAGGGCCAGCCCCTTACGTGGTCATTTGATAAGGCCTTACGTTTTGGGTTAGGAGAGAAAGGGGGAAGAGGGTGGGGGTTATTTTTTGCATGGATTCTTTTTGTTTTTTTTTTTTTTTCCTGTGAGAATGAAGAGTGCATCCTCTAGTCCCAAACTGTTCTTCAAGGAAGTCCTGCTGAATAGCTGTTTTCAGGCACTGCTGTTTCAAGATGAGATGTTCCATAGATCATTTCTATACAAATATAAATCTAAAGAGTTGTTCAACTATTTTATTAACTTAGATTATATCGATAAAATATTTGTTGTGTGTAGTAAGACTCTGCAGCTTTAATAAAAATGACAGAAGATTTGAGTGTTATTATTTCTTTCTTAGAAATCAGACCGGATATTTTGTTTGCACCATTTATTTTATTTTCTGTAGCGGGATTTCTGCTCTTGGACCACAGCTGATTCTTGCCGGATTCACTTAAGGTTGTGTTTCAAAGCAGCAACAGGAGAACACCAGTCAGCCCCAAGAAGCTTTATGGAGTTCTTCGTACTAAGGAACAGTGGGGTAATATTGTGTGACATGGACCCTTCGGTGCTTATAAGGATGTTTTGAGGCTGGCTGATGCCATGAAATACATTCGGGTGTTAAGAATAAGCTGCCTGTTCTCAGAGGAGGTCATGTAGGATTTGGTCCTGATTTTGCTCCAGGTCATTGAAACCAGTATAATATAACTTGAGCCAATCAAAATTTACTAATGTTTAGAAAGATTTCTGTTCAAAGCCCTAAAAGCTCTTAGCTTTGTCTTCAGGCCCCAGTGCTTAACGCCAACTCGGACCCCTTCTCCGTAAGTTTGCCTGGTCTCTTTCTGGCTCTTAAAGTTTTGGCCTCCTTAAAGTCCAAAAGCAACCAATTTCTCACTTTAATTCTATGCTACGTATTTTTCAAAAGCTGTTATTTGATGACTTAGCTGGGCGTCCAACATACTGGAAGAGAGGATGAATGACATTTCTCATCATTATTTTTTGCACTATGCTTGTCTTCATAGACTTACATCACAACCCCTCCAACTTATATCACTTTGGGATGAACAGTCTAAGTTCTTTTTTGCATGAAAGCTGTTTCACACTTCTTATCCTCTTCACACGTCTACATGTTTTCTGGTTCCACTCTATCCTTGTGAGAGTTTCACAAAGGCTGTTAATTCTGTTCAAGCATATTAAAAATAGAGCTTATAGCACAGTGGAACAAATCTGTCAATCAACTCAGAAGACAGCTGGTATGTCCTTTTATCCCATCAGTAGCAACACATAAGCAGTAGCACCTAACCACGTAGATATCTATTTGTCCCGTTCATTTCAGTAAGATTGTCACCTAAGGGATCTCTCGTTTTTCTAGCAGAGCTAATTAGTGACAGCATTTTGCATTTTACAGTGGGTATCCTGAGAGCTATTTTTTTCCTTGCTTTTGTTATCACAGGCAGAAGTGGGGACAAAAAGCTTTAAATCTTACTACTGGTGAAGTTGAAAACTGTTGAAGTTCAAAAGTTGAAAACAGGAGGCATGATCTCATGCTTGAAATGAGAGAGGACCATTTGAGTCCTCTGTGATTTAGTTCTTCCCAAGTGATATGCTGACCTCTGGAGGCCATCGACAGCTGTTATAATTATAGCTCAGCCTAATATACATCCCTGCCAACACAGGCAAGAAAGCTATGTACCCAGAACAAGGAAAATCCAGCTATCACCTTCATCATCCTCAGTGGCTTATTGCAAAAACTCTGTCTCAGTATCCCTGTTAGTTTGCACTACATGCTGAACATATTCATGATGCTAAAGCAAGGTGCAGGTGCACGGTCATTCTTTCGATCTGTGCATGGGAGTACACAGTGAGTACTGCATTGCCAGGCAAGTTCATAAAAACAGCTTCATTGCAGATGCCTTTAAAGCTTTCCAGATCATTATGCCCTATTGTAATGTCTCTCTCAGGGACCTCTTCTTTCACACTTCTCCTTTCCCTGAAAAAGTAAAGCTTGACAGCCCCGCAGTACAAGAGAGGAAAGGGGTGCTTACAGCTTCATTAACATCTACAAGTTCATGGCAAAAAAAAAATGTTACAGTTGACAGCAACCAACTATAAAGCTGCTCTCCCTTCAGCCTCATGCTAGTGTCGTATTGAGACAGACTGATATCAAAGGGAATGTGTAACATCAGGGAGCATGAAGTTAACCCCAACACATGGAGCATACTTCAGAGACTGCGCAGCATTCTGCCAGTGGTCCCGACACTGCCAGGGACTTTGGCAAAGTGGGCAGTGATTTTGACTTTTCAGAGTTGCTACAAAGAGGTTTGGAGCCCTGTTCTGACCTCGTGCCGCACCATAGTAGAAGTGACACTGGAAGAAAGGAAATGGCAGAATTACATCGGTGTAAAGATGGCATTGATGTGATCAGGAGAAACTGAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028582:ENSGALT00000043955:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0041217=LIM=PU(94.9=76.7)
A:
NA
C2:
PF0041217=LIM=PD(3.4=2.7),PF079757=C1_4=WD(100=56.8),PF0041217=LIM=WD(100=79.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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]