BtaINT0085554 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012342 | LIMA1
Description
LIM domain and actin binding 1 [Source:HGNC Symbol;Acc:HGNC:24636]
Coordinates
chr5:29849880-29860480:+
Coord C1 exon
chr5:29849880-29849925
Coord A exon
chr5:29849926-29860015
Coord C2 exon
chr5:29860016-29860480
Length
10090 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
TTCACTTTTTGTTCTTCTAGAAC
3' ss Score
10.28
Exon sequences
Seq C1 exon
GTACCAGAAAGCAGCGGAAGAAGCAAACATGGAAAAGAAAAGAAGT
Seq A exon
GTAAGTATTTGGAAGCCCTGCGACACGTGGAACTTCGTGGTCGCAGCTCATGTGGCCCAGCCCCCTGCAGCCTCCGCGGGACTGTGGGCTCTGCGTCAGCTGAGCCGGGCCTTTGTGCCGGCTGGTCTCATTGCTGAACCATTTGCTCAGGAGAACTTGGCTCAGGTGCAGAGAATCTTATTTTTTCCCTGAGGTTCTCCTTTGAGCCACTTTTTCTTTCCTGAGTTGAGTGAAAGACAGAAGGCCAAGTACTTTGCTTGTGGTTATAAAATGGCTTACTGCTTCTGCTCAAATCAGGAGACAGGGCTTCCTAGGCTGTTTCTTTTTTTCCAAATCAAACAACCCGAAAGTCTCTCTGCATTTAAATGGTAGCAGCTGTGCAGCTGTTGTCGTTCCCCTGGGTTCTTTGTTTAAAGCAAACTTCTTGACCCAGTCTAGTTAGCAAATTTCTTAGCAGCAGGATCCACCAAAGGCCAAAACCTCAGAACCAGCTCTCGGCTCTACCCATTTTGTACTTTCCCGCTGGCTAACTTCCAGTTTGGCTGGGTAGTGTATTTCTTTTGAAATCTTACTTGATTTCTTCATATGAGGGGAAAAGCCTCACATATTTGGGCAAGAATTCTTCATTTGTCTGGCATTACAAAAATATCCTCCTGGCAGTTTTCAGCACCTAACCTATTTAAGTGAGTGCAAAGCATGCCTCTGTCACTTTGTCTTCTCTAAGGGGGCAGTGCTGACTGGGTCTTTGACAATTTTCCTGTAATTCGAGAATGGAGCCCTTCTGGTGCACTGTAAGAAAACTTACCATCACTTCACTCAACTGCTGGTTTTCTTTTCTTTCCTACTCTCTCTCTCGCTTGTTATTTTTCCCCTTTCTCTTTTCTTCATTCCTTTTTTCCTTTCACTCATTCATTTTAGCAAGTATTCAGAGTGCCCACTGTATGCCAAGCACTGCGTTAGGCACTAATACAGACTACATCTCTGCCCCCATGGAGTTTATATTCTGGTGGGAGAGACAGACCATAAAGATGTAGCAGGTATAAAACAAAATGAAGCAGGTAAGAGGGATGAGTATAGTGGTCAAGGAGGCATTTGAGCAGAGGTCTGAGGACAGGAGCTTGGGAGAAAAATAATTCAGGCAGAAGATAAGAGCACATGAACATGCCTCGAGGCAAGAACATCCTAAATGTATTTGAGGAACAGGAAGGGAAATGTCATGTCCAGTTGTTGTGAGGACATGGACCTTAATTCTGATTAAATGGGGGCCTTTGAAGGGTTTGTGCAAAGGATTAATGTGATCTGACTGAAATTTTAAAAAGAGGAGGAAGAGACTAGAGGAACAGTAGCAAAAGCGTGAAGACCAATTATAAGACAGTTGCAGTGATTTAGGCAAAAGATGATAATGGATTGGACTGGAGTCATAGCTATATGGGCTTCCCACATGACTCAGTGGGTAAAGAATCCACCTGCAATGCAGGAGACATAAAAGATGTGGGTTCAGTCCCTGAGTCAGGAAGATCCCCTGGAGGAGGGCATGGCAACTCACTGCAGTATTTTTGCCTGGAGAATCCCAAGGACAGAAGAGCCTGGCAGGCCACAGTTCATGGATTGCAGAGTCAGACACAACTGAAGTGACTGAGCATAGCACAGCACACAGGAGCTCTACAGGCGATGAGAAGTAGTCAGGATTTATACTGAAGGTAGAAAGGAAGAATTGCAACAATGCATCTGGCCCAAACACCAGGAAAAATGCCATTGAGATCAGGAAGGTGGCAGTAAAAACAAGTTAGAGAAGGGAAAATATTTGTTAGAAGCTTAGCTTTGGACATGTTAAATGTAATTCTTTATTAGGACTTCCAAGTATCGATGTCAAATAGGAGCTTGGATGTACAAATCTGGAATTGGAAGAGATCCAGCCTGGAGATGAGATCTGTGTGTATCAAAGTATCAGTGGTTTGTAAAGATAAGAAATGGATGAGATCACCTGGGGATTGAGTGTAGCTAGAAAAGAGGTCTGAGTACTGAGCTCAGGGGCACCTTGCCATTTAAAGGTTGGAGAGAGAAGGAAGAACCAGCAAAAGAGACTTAAGAAGGAGCAGCTGGTGAGATGCAGTGAAAAAAAGAGAATGGAGTACCAGATGTCCAGTGAAGAAAGTGTTTTCAAAAGGCAAATTATCGAGTCAAACGCACAGATAGGCTAAGAATTGACAATCAGATTTGGCAACATGAAGATCATTGGTCACTTTGTGCTGTTTGGTAGTGATGGGCTAAAGGCCTGATTGAACTAGGTTGTCTAATCAAGACAGTCAGATAACAAAAGTTGATACCACAAGTGGAGATAAACATTTATGGAACATCTTTTATGTGTCCCGAAAGCACTAAGAGGAATAGGATGTGGTCCCCGCCTTCAAGGAACTGCTTAGAGTTTAGAAAGTAGGATTTATTTTATTTATTTTTAAAATCAGATAGCATTCTCTTTTTAAAAATCTTTATTTATTTTATTTCTTGCTGCACTGGGTCTTTGTTGCAGCGTGCAGGCTTTTCTCTAATTGCAGCAAGTGGGGGCTACTCTGTATTTGGAGTACTTAGGCTACTCATTGTAGCGCCTTCTCTTGTTGCAAGGCACAGGCTCTAGGCATATGGACTTCAGTAATTGTGGCTCTCAGGCTTAGTTGCTCCACGGCGTGTGGAATCTTCCTGGACCAGGGATCGAACCTGTGTCCCCTGCATTGGCAGTTGGACTTCCAACCACTGGACCACCAAGGAGTCCCAGAAAGTAGAATTTAGAATCTCAGTGTGGTAAGTACCATATTAAAGAAATATGCAAGGTGCCAGGGGAGAATTTAGGAAGGACTCATAACCTGGACTATGTCATGTCCAGGGAGACGTCCCAAAAGAAGTGGTGTCTGACTGAGCCTGAAGGATGACTAGGAATTAGCTAAATAAAGGGGGCAAAGGAGTGGTAGAGGAAGCAGCAGGTGCCCAGTGTGGAGGCATAAGAGAACAGGCGCATCTGACAGTAGAAAAGATAGCTGTCCCATTCACCGAGATGGAAAATTCAGAAAAAGAGTGAGGAGTAAAGGGAGGAGAGGGGAGACTTCAGCTTTAGACAAGGATGAGTTTAAGATATCTGTAGGATTTCCAGGTAGAACTGATAGGTAAGGAGAGCTATCTGGCTCGAGTTACAGGGTGTGGATCATCCATCTAGGTGGGTGAAAGACATCATCTATAGAAAAATATGTAAAGCGACTAAAGAGGATGACCTAAAAAGGCAGAATCTTGAGGGACCCCACTATATAAGGGAGGAACTAAGGAAGAGAAACTTGTTTAAAAAGAAAAACCTGAAGAATGTCTAGAAAAAAATGGAAAGAAATCTAGGAAAAAGGGATGTCACGGAAACTATATAAGGAAGGAAATTTTTAAAAGGGGGGAGCAGTCAATAACATCAGATGCTATAGAGAGATCAAATAAAACAAAGGAGAAGTGTCTATTGTAATGGGCAGTTGAGGTAAAAGGGTGTGAGCAGATGATTAAAGAAGAAACAATAAACCGAAAAAAAAATGCTTTTACCTCACCAATAATCAATGAGATATAAATTTAAATAACTGTGAGATATAAATTGTAACCCAAACAGTAGACAGATTTTTTAATTGGTGAAGTCTACTAGGCAATGCCTATTAAAATTTTGGATATGTTTAATACCCATTGATCCTGCAATTGTGCTTGTAGGAATGATCATTGAGAAACACAAGTGAAATAAAATAAATGTAAAATGATATTTATTGCAGGATTCTTTGTAATACTGAAATGTTTAAAATTAGATACTCATCAGTGGGGAAATAGTAAATCATGGTATCTACATCCATTATAATAATATAGCATATGTTATGTATGATATCATATGGTTAAGATTTTATGTAACATGGAAAGGTATCAAAAGCACATTAAATGATTAAAGGACTTATGTGCAGAATAGTAAGTATAGTATGATTTTGTAGAAAAAAAAAGATACTGTATAAAAATAAGGGAAAAGTTGAGAGCATGCGCAGCAAACTGTTGACAATGGATGTCTTGGTTAGGAGGAGCAGAGGAGTCAAATAGAGAAACTTGAAGCATATATTCAAGGCGTATATATTCCTATACTGACTATGACTCCCCCCCCACAATTAGTTTTTAAAAATACTTTTGTAATTGAGAAAAGTAATAAATTAAAAATAAGATAATGAAATGAAAATTGTAAAGAAGTAATTGGTGATCCTGATTTGTGCTAATTCAGAAGTGTTTTGGTAGTAGAATTAGAAGGAATGGAAAGTAGTCAGGTAGGAACAGCAACTACACAAGACTGTGCTTTCAAGACCCTTAACTGTGAAATGTGGGAGACAGCACTAGCTGGAAGAAAACAACATTGAAGATTGGTTGCTTTTTTTTTAACAAAAATGTTTTATTTTGAAATAATTTTGGATTTATAGTTAGCATTATTAACTTAGTACAGAGAGCTCCCATAAAGCTCAGCCTACCTTTCCCTAATGCTAGCATGTTCTATAACTATGGTACATTTATGAAAACTAAGAAATTAACTTCGGTGTAACCCTATAAGTTAAACTAGACTTTATTCAGATCTTACCAGTTTTTCCATAAATGACAGATGGTTGCTTTTAAGATCTACCAGACTTGTAAGTGGTCTAATTTGTCTCCTGAACAACAGGGTGGAATGTATGTATAAATTTATTAGCGACGGCTGTCCAGGTGAAAGAATACTTATATTCTTGGAAAGCAAGATAGAGACACATTCAGGAGCAAGTGGGTAAATCTGTTTCTTTAGCAAATGCTGGGATCAGGTTACATGATAGCTTGGATTTCCAGAAATGGAGCCCTTCTTTTCTCTTCCCCTTCCATTTGTATTTAGGACACAGAAACACAGATGATCAATACCACCATTGATTATATTTTCAGTTTCCTTTCAAGCCTGGGATATGCCACATCTTGAAATCTGTGCTGTTTGGACAGTCATCATAATGACTGGCTGCCACTTTTTTGAGTAGCTCTTAGCCTAGAAATGTCTCCCCCTCCTTGGAAGCTGTGCATCCAAGTGGTCTGTACTTCCAGCCTACTGCTGCATCCTACCAGACATCGTCCTGCTTTTAAGATGAAGATTCCCCTGCCAAGATTTCAAACACTAAAGCTCATTTGACCCCACCTCTTCATTTTGCGGGTGGAGTAACAGACCCAAAGAGAGGAAGGGATTTATCCAAGGCCCCTTCCAAGTCAAATGTTCCTGCAGAAAGGACATTGTTGCATGTTCTGAGTGTGCCTGATCCTGTTTTAGGCACCTGGTGATGATCCAGAGGCAGCATCCACAGAGATTCTCAGCCTTGCTGGGTAGGATTCTGGATGTCACTTTGAGAAAGGAGGCTGGGGTTTTCTTGCAACCAGTGGGGCCCTTGAATACTTGTACCCTCCCTGACTTCCCACTGCCTTATTCTAGGAGAATACTTGGTAAAATGTTAAAACCTTGATGCAAATGACATAGACTAAAATTTCACCTTATTACCCCTCCTCCACCACCTGACTCTGAAACAACAGAGACTGTAGAGAGAGTAGAAAGAACAATAAGAGACTGTAACTCCAGTTCAGGATTTGAGAGATGACTGGATACTGTTTGTTGATCATGATTGTGAGGTGTGGCTGGAGGAGTGAGGAGGGCCACCCATTTAATAATAGTCGCCACTATTGGTCAATTACAACATACGTGCTTTTGTATAGTTGCATTTATTCTCCACAATAGCCCTGTATGGTAGTTTCCAGAAATTAGGAAACTTGCCCAGGGTCGTTTGGCTGGATGAAGCTGGATTATATAAGCATTATATGCTCATTATAGGAAATACAGATACGATACATAAAAGAGGTAAGTGATGGGGATTTGCTGTATAGCATAGGGAATTATGGGGCTTCCCAGGTGGCGCTAGTGGTAAAGAACCCACCTGCCAATGCAGGAGACATAAGAGACATGGGTTTGATCCCCTGGTTGGGAAGATCCCCTGGAGGAGGGCATGGCAACCAACTCCAGTTTTCTTGCCTGGAGAATCCCATGGACAAAGGAGCCTAGTGGCTACAGTCCATGGGGTCTCAGAGTCAGACACGACTGAAGCAACTTAGCACAGCACGACACATGGGAAATTATATTCAATATCTTGTAATAACCTATAATGGAATATAATCTAAGAAAAAAAAATCCCTGAATCACTTTGCTATATACCTGAACCTAACAACATTGTAAATCAACTATACTTGAATTGAAAAAGAAAATATATTCTCGTGCTCATGCTCAGCCATGTCCAACTCTTTGCAACGCTATGGACTGTAGTGCGCCAGGCTCCTCTGTCCATTGGATTTCCCAGACAAGAATACTGGAGTGGGTTGCCTGGCCTGTAGCCCACTGTCCAATGATAACCCAGGCTGCTTCCGTCCTGTACTCTTTTCACTGTGCTGCCCAGTCTGCTTTCAATTCTTGCTTTTGCCCTGTGCCTTTTTGCTTCTCTTTCTTTCCCAGAAAGCCTACAGCCACTGCTTCTGCCCCATCTTTTCTTGCCCAAGCTCTAAAGTCCTGGACAACTAACATGACCTGGTGGTGCTGCCAAGAGTGAAGACAGAGTCTGGGGCCTTCAGTGCTATCAGACCTCACAGCCCTGCCCTTCCCCTACTTGTTCCCGCCCTAGCACTTTTGAACTTGCATCCTTAAGAACTCTTTTTATAAAAGAGCACATTCACTCCTCTGTTAAAATGCCCCCCTAAAGGATGTCTTCTACCCAGGTCTTTGTTTGGGATGTTGCTGATACTCCATCACACAAATGCCTTTCTTTCAGGTCATCACAAGTTAAGTGGAAATGACAACTTTCAAACCATTTACAAATCACATCAAAATTATTTGATATTCCATTGAAGCTTTTTTTGTGTGACATTGTATTTATTTTTATTATACAATGAAAGCACATTTATTATAAAAAAAGAAGAAAATATAATCCAAATGCCCATAAATCCATGATCCCCAGAGGCAACCTGTTAACATTGGGATGTCTTTTCTTCCAGACTACTATTCTGTGTTTATATTTATAAATATATGTGTGTATTATAGGCCTGCCCCAGTAGCTTAGCAGTAAAGATTCCACCTGCGATACAGGAAAGGCAGGAGATGTGGGTTTGATACCTGGGTTGGGAAGATCCCCTGGAGGAGAAAATGGCAACCCACTCCAGTATTCTTTGCTGGAAAATTCCATGGACAGAGGAGCCTGCTGGGCTACTGTCCATGGGGTTGCAAAGAGTCTGTCAGACACAGCTGAGTGACTGAGTACAGCACATGTGTATTATAACATGAAATCATGCTGTCATTTTTTTTCCCTTCATTTTTTTGGCCTTGCCACATGGCTTGTAGGATCTTAGTTCCCCTGCTTAGTTGCTCAGTTGTGTCTGATTCTTTGTGACCCCATGGACTGTAGCCCACCAGGCTCCTCTGTCCTTGGGGATTCTCCAGGCAAGAATACTGGAGTGGGTTGCCATGCCCTCCTCCAGGGGATCTTCCCAACTAGGGATCAAACCCAGGTCTTCCATATTGCAGGCAGATTCTTTACCGTCTGAGCCACCAGGGAAGCCCCAAAGTGAAAGTCTCTCTGTTGTGTCCAACTCTTTGTGACCCAGGCCAGAATTCTCCAGGCCAGAATTCTCCAGGCCAGAATACTGGAGCGGGTAGCTGTTCCCTTCTCCATGGGATCTTCCCAACCCAGGGATCGAGCCCAGGTCTTCTGCATTGCAGGGGGATTCTTTACCAGCTGAGCCACCAGGGAAGCCCAAGAATACTGGAGTGGGTAGCCCATCCCTTCTCCAGTGGATCTTCCCGACCCAGGAATCGAATAGGGGTCTTATGCATTGCAGGAAGATTTTTTACCAGTTGATCTGCCAGGGAAGTTCCCCTACCAGGGATTGAACCCTGGGCCCATTGCAGTGAAAGCGCCTAACCACTGTATCGTCAGGGAATTCCCCATGCTGTCTTATAAATAGCTATTTCCACTCAAAAGTGTCTTATGAGTATCTTTTCATGTCAATAAATATACTTTAATCACATGTCTCTGAGAAAAGTAGTGTCCAGTTACCAAGGCAAAATGCCACTTTGATTCTCAGGGCTTCTGTTTGAGCAGGGCAGGGCAGGTGAAGTTGGAGACCCAGATGACTCATCCATTGTGTCTCAGGATGGAGCCCAGAGCTGAGAGAGTTGCTGGCAGTTAAGGTAGCAGCACCAGCTTCCAGACCTGTTTTCGTTTCTTAAGATTTATTTGTTTATTTTATTTTTTGGTTTTTGTGGTGGGCCTGTGTTGCTGCACATGGGCTTTCTCTATTTGCAGCAAGAGGGAGCAACTCTCTAGTGGTGCACACGGTTCTCATTGTGGCAGCTTGTCTTGTGGAGCACAGGTTCTAGGCACTCGGTCTTTAGTAGTTGTGGCGCACGGGCTTCGTTGCTTCGAGGCATGTGGGATCCTCCAGGACCAGGGATTGAACCCGTGTCCCTTGCATTGCAAGGCAGATTCCTAACCACTGGACCACCAGGGAAGCCCCTGGACCTGTTTATGTTTTGTTTTGTTTAACTTTTTATTTTGTAGCGGGGTATAGCTGATTAGCAGGGTTGTGATGGTCTCGGGTGAACAGCAAAGGGACTCAGCCATGCACATGCATGGAGAAGAATGGCAAAAAGAATAGAACCCAATCTGTTTTTTAATTCTCTCTTTTCCAACAAGCAAACTTTTCATGCTGCTTCTATTTCTGACCCATACACGCTTCCCCCAGTGAAGCATATTGTCAGCTAAGATTTAAGCGCAAAAATCAAGCAAAGTTGTTCTTCTCTAAGTTTCTTTTTTCAAGTCTTGGTGTTACTTGAAGTGGCTCTCATCGTGTATTCAGAAGAGTAATAAGGTGAGAGACTTAATTCCCAATATAGCTGCTAATCCTGTTTAATTCCCTAGAGTCTTTCGGTCCTAGTTGGTTTGTCCTTTCTTAGTTGAAAGACCGGTGAGTCACAGACTGCAGGAATGGAGGGCAAGAAGGTATTGGAGTTTGTGCTTTGTTGGAAAGGCGCTGCTGCTTGCTTTATTTAGGAGTGCTTTCCAAGTCTGGGACGTTGAATTTTACTTCACCAAGCATGTCTCCTCTAATTATTACAGAGCAACATGGACAATTTCCAGATTGTTTTCAATGTCTTATATGTATCAGTTAATTGCAGTTTGACCCAGGCGAAAGGGAATTAATTGTCTTAGATGTGTATCCTTCCTTCAAGAGAGGGAGTAGTAGTGGTGTTTCATATGAAGCCTGGCTATTTTGCAACCAAAAGGTCTGGAAAATAGTGAATTTTCTAACAGAATTTATACATGACCAACATGTAGAGAAGAACAGCGGGTGGGGGGTGGGGAAGGATTCAGTTATTATGTAAAAATAAAATTTTTTCATGTAAATTATGTTACATATGATGATATGTCACTTATGCAAATACATGTAAAAGTCTGGTGGCTGCTTTAAATTTCCACAAATAGTTTCAATTCTTAATGCTACTATCCACAATTATTGGTATTGTGTAGTGTAAGCTATACCGCATCTTTGTCTCATTTAAAAGAAAAAACCCAGCAGGATTCACCACGTAATTTTGTGGCATGTAATAATGAAATTTTATTAGTACATATTTACAGGATTTAAAGTAACTGTTAATTTGCTTTTTCTTTCTGTTTTCCCCATTAATCTCTGGGTAAAAAAATCCCTTGTCTCCAATGTAACTATCATTAGATCTGGGCTCTCCTTTCTTCTCATTTTGTCCTTATAAGGCTATCCTGTTTTATCACTTCCTGCTTTAGCTCCTGACTTTTTCTCTCTTCCCCTCGCCCTCTCCTGGGGTGGATGCTTTCTCCATGTGGCAGGGCTGTAACTGTTCACAGCTGTCGGAGACGCCAGTGGAGCAGGAGCAGCTTGGAGTTTTAACTTTCATTTTACAAAGAACAACATGTTTGAAGGTTTCAGCAGGCAAGTTATAACTGGCATTCACTTTTTGTTCTTCTAG
Seq C2 exon
AACGCTGAAAATCTCCCCCAGCACTTTAGAAGGGGGAACCTGACTGCGTTAAGGAAGAAGTGGGAGAACCCCGTGCTGGGAGCCGACTCTCTCCCAGACTCAGTGCGAAACAGCAGCGCAGAGGTCAGGCACAGAGGCGACCCTCCTCCCGCTGAAGTGGTGGGCAGCTCTGCCTCTGGGGTCCAGGCTGACCGAGAGGAGCTAGTCCAACCCAGACCTAAGATCAGATCGCCTCCTGAAGCTCCTACTAAGTACCCGCACCCCCGCATCAAGGACAGTGAGCATCTTAAAGACCACTCAACAGAAAATAAAAAGATGGAAAACTGTCTGGGAGAATCCAGACATGAAGTAGCAAAACCCGAAATGAGTGAAAACGCAGAAACTGCAAACAAAATAGAGAAATACAATGTTCCGCTGAACAGGCTGAAGATGATGTTTGAGAAAGGTGAACCAACTCAAACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012342:ENSBTAT00000016376:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.688 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF137631=DUF4167=FE(25.0=100)
A:
NA
C2:
PF137631=DUF4167=PD(16.7=6.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
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]