BtaINT0086018 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006951 | LMO2
Description
Bos taurus LIM domain only 2 (rhombotin-like 1) (LMO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001076352]
Coordinates
chr15:65394511-65401799:-
Coord C1 exon
chr15:65401584-65401799
Coord A exon
chr15:65395515-65401583
Coord C2 exon
chr15:65394511-65395514
Length
6069 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
TCTCTCTTTCTTCCCCCCAGGCT
3' ss Score
12.44
Exon sequences
Seq C1 exon
GGAGCCGGTGGACGAGGTGCTGCAGATGCCCCCGTCCCTGCTGACATGCGGAGGCTGCCAGCAGAACATCGGGGACCGCTACTTCCTGAAGGCCATCGACCAGTACTGGCACGAGGACTGCCTCAGCTGTGACCTCTGCGGGTGCCGGCTGGGCGAGGTGGGCCGGCGCCTCTACTACAAGCTGGGCCGGAAGCTCTGCCGCCGAGACTATCTCAG
Seq A exon
GTGCGTCCTCCCCGCCCTCCTGGGGCCCTGGCTCTGTCTCTCTGGCGCCTGCCTCCTGGGCCAGTGAGATCACGTTGGTCTCAGCTGCCCTGTGCAGGGGAGCAGTTGGCCTTTCCTCCTGTTAGGGAAGCATGTTCTCGGGGACACATGCCTGTGTGGTCCAATTCTCATATTTTAAAGGCAAGAGAGTGATGAGCACAAAATTCAGAATAATGGTTCCCTCTGGGGGTCAGACAAAGGGAGAGGGTGGTGAAGGAAGGCACAGGGTATGCCAAGGGAACTGAGAGTTTTGAAGCTTGTAAGTTTGAGGGTGGATTCCTAGCAGCTCATTTGATGCTTCAAAAACATATGCATAGGTTATAAGTATTCTTTTGTAAGATCTCAATATAATGTGATGAGAAATTTAAAAAGAGTAGCATGGAAACATATACACTAATGTTTATAAATAGATAGCCATTGGGAACTTGCTGTATGACTCAGGGAACTCAATCTGGGGCTCTAAGACAACGTAGAGGGGTGGGATGGGGTGGGAGGTTGGAGGGAGGCTCAAGAGGAAGGGGACATATGTATGCCTATGGCTGATCCATATTGATGTATGGCAGAACCCCACACAATATTGTAATTATGCTTCAATTAAAAATAAATTTACAAAAATTGAAAGTACAATCTCACCCCAGCACACCAAGCAGTTTTGGTCACAGCAGGAAGGCCCTGAAGTCAGCTGTAGATTTGAGCCCTGGCATCACTGCTTTCTAGCTCTGTGACCTTGGACAAGTTACATAACCTTCCTAAGCCTCAATTTCCTCATCTGTAAAATGGGGTTATAGAATAGCAGTACCTGCTTCCAGGAAGGGGTGGGAATTAGATGAGGTGGTACATGTAAGGTGCTTGGCATGGTGCATGGGTATCAAATAGATGTTGCTGCTGCTAAGTCGCTTCAGTCAGCTGCTGTCTTTCAGTAACCCTCATGACGTTTATCATTAGAGTCTTTCCCGACCTAATGAACAAAGTGATGGAAGAATGGAAAGGCAAAAGAGGAACTCTAGAACACCCACTGAGACAGGCACTGAAGCTATCTCGGATACTCTGGGTCATACATTTGGCTATGTGAATTTTCCGATTCTCAAACGAGTGCCTTTGCCTGGAATGTTCTAGTTTCATATGAAATTTCCAGTTCCATATTAGCTGCGGCAGAGGTAACTCCATGCCCTCTGCTGTCAAACCTGCTCGACTGTGCAGCTGTCAGTTTTTTTTTGCCATCTTCGCGGGGTACAGGGTCTGTGGAGCATGCAGCCTTAATACATTAGGACCACCCAACCCAGGGAAGCTTGTTTAGACTCCAGTGCCCTTGGCTGCCAGGCCAGCTCTTTCTCCCAAACCTGCCCTCAGAGCATTTTACATTAAAAAAAAAAAAAAAAAACTGCAGGCAATTCCATGGTGAAGCAAGCTTATCTGTTTACCCAGAGACTGACAGAATAAGCTTTTTCTCCCCCCTAAATTTCCTGATTAAAGTCCTTGCAGATTTGGTGGTTCAGAGAAAAGAAGTTTCCAAGGATCATGATTTTAATTTTCACCATTTATTATTATTATTATTATTAAGGAACAAGAACATAGAACTGGGGTAAATAGAGACCTGATTCTCCTCCCTACTAGTTTGCCAAATCAGTGTGGAAAAGCAGACGGGTAAATGATTCCCACTGGGCCCCCTGACTACATCCCTGTCAAATCATTTGAATCTTATTAAATGAAGTACAGATAGAGTAAGGTCAAAAGAGCCCAGGTTTCTCCCTATCTCTGAGGTTTTATATAACATTCAAGAAGAAAACTCCGTGCTGCCTGGGCTTGTTAATCTCTTGCATTTTTAAAAAGGATAGAAAAAAAAAATAGTCTGGGAGACCCAGTGTTAATTAACTTGTGTCTTGGTGACATGAAATAATTCTTTTCCTTGCTACATTCCTAGGCAACATGTTAATTAACTCTGTGTTAGTGCAGGCGTTTCCAGCCATCCTTTCATATTTATATTATTGTTATTAAAATGGGCAGGTGGAAGCTTCAGACATGACACCTCTTGACAGAGGAGAAAAATCGTTTCTTGCTGCAGGCATGGCCCTTCAGCCATGGACTTGTTTGCTTGCATTCTTCACATAGCTGACAGCGCCTTTGCAAAAGGCAAGTTGGAGGAGTGAGGATATGTGTGCTGGGATGGTGTTCAGTCCTTGCCCCCGTCCCCCCACCCCCCACCGTCACCCCAGGAGAGCTTCTCTCCAGGGTTTCCAGTTGCTGCCTGGCCCGTTAAAGTCTTTTTCAGACATTTAGCCTCACAAAATCAGGAGATCCCCATGCAGAACCTAAATAAACTCTTAATTGCTAAGTTGTGTCCGACTCTCTGCGACCCCATAGACTGCAGCCCACCAGTCTCCTCTGTCCATGGAATTCTCCAGGCAAGAATACTGGAGAGGGTAGCCATCCCCTTCTCTAGGGGATCCTCCTGACCCAGGGATTGAACCCACGTCTCCTGCATTACAGGCAGATTCTTTACCATCTAAGCCACCAGGGAAGCCTGAACCCAAATAAACCCTGTGCTATTTATGTCGTTTTCTTGGGAACTTAACAGTAGCTGTTAATGTCAGTACCAAGTCCAGATCCCCTCAGATCCCTTTTTACGATTTTTGTGCTCAGTGCAGCCCCTACCCCCTATTGTTTTACCTTCAACAGCACCTTTCTGTTAAAGCCAGAAGCCTGCCCAGTACCCCCACCCACCCACCCAATGCCCAGCAGACCTTGCCCAGTGGCTGGCACTGCCAGAGACAGAAGTCTAGTAATCTTGCCTGGAGCCAAGGCCGCTTGGAGACATAACTTACACCCCAGAGTCCCCGTGCATTCAGGCCAAAGCTCCCTTCTGGGGGACTTGGCCCAAGACTGCAACTTGGCCTGCCTTCCATCTTCTGTCTGGTTTCCCTCGCCACTGTACCTGTTTTCCCTGATGACACATCCTTAATAAATCCTGGCCTCTGGGTCAGTTTCTGGGATAGCCAGCCTAAGTTACCAATTCTTGGTGCCAGAGGTGAATGTGCAAGTTAGATGTCAAGTCCTAGCTTATTTTCACTTAGTGAAGTCTCAGCACACCAGAGCTGGAAGGGGCTGTAGAGGCCTTCCTTCCCTTTCAGTTCTCTTGTCTTACAGCTTAAGACACGGAAGCCAAGGCAGAGGATGTCCCTGGTTCCAGGAGAACTGGCTGATTGGAGGTGATGTTGGGATCTGAAGGTGTCTCCCAGATATTAGTCCTTCATGCTTCCCGTCATCAACTGCCTGACGTGTGTGTAATTTACCCCCTGATTTCCCTTTAATAAACGCTCCCCTTCCGTAAGGGCCACACACTCCAGGCGGTTGGCTGCTTTCCACGCATGCTGTTTTGTGAGTCGTTTATTCTCACTCAGGCCCAAACTCCTCTGACTGAACAATCAGGAAATCAGAACTGTCTTTCCACTCCATGACCTCCAAGGTGGCAGTTCCCGACAGTTCCACCATCTGCCATCTTGGGATGAAGTGTTCTTCCCCCAGTAATGAGTTTGCACCCAGGTGGGGCCTTGAAAACACTCGGAGATCTTCGCATGGAGAGTGGGATTTGGAGGGAAACTAGCCAGCCTGTCTGTACCTGCGAGCTCTCTACCCACAGACCATGTCTTCCTGGTTCCATTCATTCTGCTCTAAATTTGTCAACTGCTCTCATCGCCTCTACATCCTCTCAGAGCCTACCAGTTGATTCGCTGCTACGCTGAAGTTCCTAAGAACTTCTGAGAGGAACAACCATTTACCTAAAACTTCCCTGAAGGTTTCCCATGGAAAAGACCTGCTGACATGCCATGTAATCAGGCAGCAAGACTGGCCCCTTTGGGAATACCCCCAAAATGTGTTAAAACCCAGCCAGCGTTGGCTTCACCCTTGAGCACTGGAGCTTTGACTTGTTGCATTCCATCCTCCAACAGCCGGGTGAGGTTGATGCTGTGATGACCGTCATTCCACAAGTTCACAGTCAACAGAGGTCTCAACAGGGTCACTTAGGTACTCAGGGCCGGTCCTGCCTGAATCGGAGTCTTCTGATTCCAGCACTTGTGTTATCCAACTCGTGCGGGCTGATTCTCAAACTTCAGCCTGCATTAGCATCACCTGGCCGTATTCAGGACCAGACAGACGGTTGGGCCTCTACCCACAGAGGTCTCAGTCAGGAGGGCCTGAGTGTGCGCTTCTAGCAAGTTCCCAGGGGATGCAATGCGGTTGGTCCCAGGACTACACTGTGAGAACCACTGCACTAGGCTCCGGCCTCCCTAGGTGGCACAAGTGGTAAAGAACCTGCCTGCCAATGCGGGAGATGTAAGAGACGCGGGTTTGATCCCTGGGTCGGGAAGATCCCCTGCAGGAGGCCACGGCAACCCACTCTAGTATTCTTGCCTGGAGAATCATGGGCAGAGGAGCCTGGAGGGCTACAGTCCATAGGGTCGCACAGTCGGACAGGACTGAAGCAACTCAGCATGCGGTAGGCTCCACCATAGTGCATCTCCTGCTTTGACACCGCATATTGCTTAAAATAAGTGACCAGTCAACTGAGACTTGGGAGGGTCTTGATTTTGATGACAGAAGAGAAGATTTTCAGAGACTTATGCCATTGGGCCAGCGAGGATCTTGAATTAGGATCTTCCATTCAATATGGAGAGATACTGCTCGTCCCCCGGGTGGCTGAGGGACTGTTCACTGTTGAGCTCCCTCCATCTCCCAGAAGCTGTTGTGTGCAATGGCCTGTGTGGCTCTGGAGAAGTCAATGACCAGCCCTCCCTGGGGGTGGAATTAGAGCCCTTGATGTGATAGTGTGTGGGAGGGAGCCTCAGAAAGAGGCCCATTTCATTGCATTCCTCTCAAGAAGGCCCCTGGGCTTTACTCCTGCTCCCCTTCTAAAATAAAAGTTCCCTTGGGAGGAAACACACAATCCATGCCTAACCTTTTTTTTTTTTAATTGGAGGAAAATTATTTTACAATGTTGTGTTTGTTTCTGCCGTACAACATGAGTAAGTCATAATTATGTATGTAAAACTATACATGATATATATATGTCCCCTGCCCTGATTTACCCTCTAGGTTGTCGCAAAGCACAGGCTGGGCTCCCTGTGTTACAGAGCAGCTTCCGCCCAGCTATCTATCTTGCCCATGGCAGTGTGTATATGTCAATGCTACTTTCTCAATTCATCCCACCTTCTCCTTCCTCTGCTGTGTCCATTCTCTACATCTGTGTCTCCATTCCTCCCCTGTAAACAGGTTCATCAGTCCTACTTTTCTAGGTTCCATATATACGTGTTAATATATGACATTTGTTTTCCCCTGTCTGATTTACTTCACTTTGTATAACAGGCTCTAGCTTCATCCACCTCACCACAACTGACTCAAATTCCTTCCTTTTATGGCTGAGTAATATTCCTGTGTGTGTGTGTGTGTGTGCCACAACTTCTCTATCCATTCATCTGTCAGTGGACATCTAGGTTGCTTCCAATTCCTGGCCATTGTAAATAGTGCTACCATGAACAGTGGGGTACATGTGCCTTTTTGAATTGTGCTTTTCTCAGGGTATATACCCAGTAGGGGGCTTGCTGGGTCATATGGTAGTTTTATTCCTAGTTTTTTAAGGTATCTCCATACTCTTCTTCATCATGGCTATATCAGTTTACACACAGCTAACCTCTTAAATCACTTCAGTTAAGACTCTTTTCACAGAGGCAGGTCCTAGGGCATCCTAGAAGCAAGGAGAGAGCTCGGAAGAAGAACGAGTTACGCCAAACACAAATGCCCCAGGCATGGTTTCATGTCAGAGGACCCTCTTCCTTCTAGGAAAGACTATGAATTAGTCATAGTCAGTTGTGGAGAGGTGGATGAATTAGTTGGCCATCTGTCTGGACCCAACTCTTCCTTGCTTCGCGACATCTTGGAAATCCAACCTACATCACGGAACCCATCCTCAGGCTGTTTCTTCCAGTCTTACCTCTGCACCTGCCTTTTTAGCTTCTCTCTCTTTCTTCCCCCCAG
Seq C2 exon
GCTTTTCGGCCAAGATGGTCTCTGTGCATCCTGTGACAAGCGGATCCGTGCCTACGAGATGACGATGCGGGTGAAGGACAAAGTGTATCACCTGGAATGTTTCAAATGTGCCGCCTGTCAGAAGCATTTCTGCGTGGGTGACAGATACCTCCTCATCAACTCCGACATCGTGTGTGAACAGGACATCTACGAGTGGACTAAGATCAATGGGATGATATAGGCCAGGGGCCCCAGCCTCTCGGGGTGGAGATTCACTGAAAAGTCCCTGTCTCTGTGGGGTCTTACGCTCTCGGGCATTCTGGGGATTTGAGGGTGGGCTGAGGCATTTCTTAGGGGATGGTAGATTCTAACTGGGCACCAAGAACCAAGACATAGCACCCAAGTGACATGATGCAAGGGGCAGAACTTAAATGTCACAAAATGACTGGCCTTGGGGGAGAACTTAGGGACAGTGGCCACAGCCTCTGGTAATAACTGACATGATTAGCCAAGGAAAGTCGGGGACTGCGGTGCCGTCATGATGGGACTTCCATCTACAGATAGGGACATATTCTGCCCAGACTTGTTATGTCTTTGACCCTTGAAAACTAGAGATGTGCAATTGATTTGTTTTCTTCCTGGTTTTTATGACAACCCTGTTCCAGCCACTGTCCTCACGAGAGAAGGACAGAGATAAAGAGTGGCCATCCTCTTCTTCTTGGCCACCTTCCCAAGGCCTTAAGCTTTGGACCCAAGGGACACTGCATGGAGACAACATTTTAGTTGAGAATGAAAACTGCAACTTTTAACCAAACAATTATTTAAAGCAATGCTGATGAATCACTGTTTTTAGACACCTTAGTTTTGAAGTGAGGAATTCCACAGATTGTTTCTATACAAATGTAAATCTAAAAAAAAAAAAAAGTTGTTCAACTATTTTATTATCTTAGATTATATCAAAGTATTTGTTGTGTGTAGTTTGAAAAAAAAACTCTGCGGAAAATAAAAATGACTGACTAAAATGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006951:ENSBTAT00000009126:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.014 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
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]
SPECIAL DATASETS
- Pre-implantation embryo development