BtaINT0085557 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012342 | LIMA1
Description
LIM domain and actin binding 1 [Source:HGNC Symbol;Acc:HGNC:24636]
Coordinates
chr5:29876997-29880292:+
Coord C1 exon
chr5:29876997-29877145
Coord A exon
chr5:29877146-29880184
Coord C2 exon
chr5:29880185-29880292
Length
3039 bp
Sequences
Splice sites
5' ss Seq
ACAGTACGT
5' ss Score
7.54
3' ss Seq
AGACTATTTTTATTTTGTAGAAT
3' ss Score
7.68
Exon sequences
Seq C1 exon
GTCAGCTGTCATCTTCAGCACTCAACTCAGAGAAAAGAGAGAGTAGGCGAAATCTAGAATTTCCACGCCTGTCAGAAACCTCCATAAAGGATCGAATGGCCAAGTACCAGGCAGCTGTGTCCAAGCAAAGCAGTTCTTCGAGCTATACA
Seq A exon
GTACGTGTTCGGCATCATTCATTCATTCACTCATCTAGCAAATGGTCACTGACCATGGGAACTAGAAATGTCTCCCACACCCTGACCTGTGAGCCCTGGCTTCTTCCTGGGATCCAGCCATTCTCTCTTCACATAAATCCTACCCTAGCTTCATTTGTGGAGAAGGCAATGGCAACCCACTCCAGTACTCTTGCCTGGAGAATCCCATGGACTGAGGAGCCTGGTAGGCTACAGTCTATGGGGTCGCGAAGAGTTGGACACGACTGAGCGACTTCACTTTCACTTTTCACTTTCAAGCATTGGAGAAGGAAATGGCAACCCACTCCAGTATTCTTCCCTGGAGAATCCCAGGGACGGCGGAGCCTGTTGGGCTGCCGTCTGTGGGGTCGCACAGAGTCAGACACGACTGAAGTGACTTAGCAGCGGCGGCAGCGGCAGCAGCTTCATTTCTAATCCTTACCATGTTCTGACTTTGTTTTCCTAGGCCTTATCCCCACCCACCTTTTCTTTGGTGATGTTACCATCAGTAATACCATTGAGAATTTTCCTGTCTCTTCTTAATCTTGTTGTTAAAGAAGTAGTGTTTGGGGGAGTTCCCTAGCAGTTCAGTGGTTAAACTCAGTGCTTTCACTGCCAAGGACCCAGGTTCAGTCTCTGGTCCGGGAACTAAGATCCCACAAGCTGCATAGTGGCCAAAAAAAAAAAAAGTAGTATTTTATTAGTTTTAATATAAACACTTATTTTTGTCTTTGAGAGGAGAAAGGGAGAACACTGGAGAGAAATATTGAATATATTCAACATTAATGTGGGATGGGACATTTTTCTGCAATTTTTATTCATATATAATTCACCTGACATAAAAATCACCATTTTAAAATATGCAATTCAGTGAATTTTAATATATTCCCAAGGTTGTACAACCATCACCACTGTCTAACTCTAAAACTTCTCCATCACCACCAAAAGAAACCCATCCCCGTTCAGTGACTCCCAATTCTACACTTTCCTTATCCCCTAGCAACCCCTAATCCACTGTCTGTTTTTATGGATTTTCTGGGTCTGGACCTTTCACGTAAATGAAATCATACAACATATGATCCACTTAATATTTAATTCCTAGGATGTAATACTTTTCTAAAGAAATAGAATAGTGGATAAGAAAAAAAGGGAGAAATGATAGGAGGGTGAGGTACTCTGTAAGCACAAAAACGTGGTATTCTAATACAATGGAGGATCTTTACATGTTACGCTTTCCTAGGTTTAACTGGCAGGAGGACACAACAGAACCGCTTATGTGAAGTTACCTTTTAAATGCCATTTATTCATAAGTACACACGCATATATACACATGTACACATATATTTGTATCTTTCAAACATCTGTTCCTTCTAAGATTTCAAATGACAAATTATTAATCTCTTGATTATTATTTTCTAATAAAATTGGAAGAATAGTATTAGATTTTATTTGTTCCCAAGCAGACTGAACCAGTGTCTGTTAGAAATCACAGTGTGTATTCTCGGAACTGACCCTTCTTTCCCCCACAGGATGAAGTATATGCCTTTTCCAATAGTATTTATTGGTAGACCAAGTCTCTGGGCAGTGAATAATCTCATCTTGATTTTTCACTACAGTTTTAAGAAGAGATAATGTGTGTAAATAAGTAGTGAAGTAGGCCATCACAGGCTTGTTATTCATTGGGAGTGTGAAAAAATAAGCAAATGTAGACTTCTCTTAAAAGGCAGGTCAGGAAATACAGCAAACATGATCTGTGGAGCTTAATTCCCTCTTGCAGGATTTTGCTGCTTCTCAGTGACCTCCTGCTATAAACATTCCGACTAGGTGACTCTCTAAGTGGAAAAACCTGTTTGGTAACTGTTTTTTCAACTCCTAATGAGAGTTTCTACATTGCGATTCTTCTGCTCTGTAAATTTTAAGAGTTGAAAAGCCTTAAGGAATTCTTGTAAAAAGCACATTCTGTCTCATCCCAAAAGAATTTCTTAGGCCGCTACAGGGAGGGCTGGGCTTTGAGGCGAGATCAGGAATAAGTTTCTGGTTGTTGTACGGTTGGTTCTGCAGTGTTAGCTGCCAGAGCTGTGGGCCTTAATCTGGAATTCACACCTGAGACAGTCAGTCCAACTGACACTCCATTCATTGGCCTTGTGGCCATAAATGGATTGTTTTCGCCCTATACCTGAAGAATCACAAAGAACAAGAAAGGTATTAGATTACTAGTAGGCTAAAGGTAGGAAATGTCCATTTTCATCTACCTCTGTATTGATTTTGGATCTAGTAATAAAGTTGATTTTAATATTTTGCCTCAAGTGTTCTTTGCAAGGAAAACAAATATGATTTTGCTCACTCCTTCTGACTCACGTCTGCTTTTTTATGTTGAAGCTCTATTATGAGAACTAGAATAAGGTATGTCTTTAGTATACTATATGAATTTTATGCAAAAAAAAAAAAACCCACCAAAATATGTTTTTGATAGTCTCACAACAAAAGGCTATTTTACGGTATCATTAAGTATAATTTCAATTCTTATATATATGCATCATCCCTGTCTTTCTTTCCAGGCCGGGCATTTATATATATGGTCAGTATCTTTTCTTAATTATTGGCACTTGGCACCTCCTTTCCCCTGCTCCAGAATGGTCTTTTCTGATAAAACTCACCAGCTTTGCATTCCCACAAGCTGTGCTGCTAGAAGAGTGAATCACGAGAGTATTGTATGCTGGGCAGCAGGGTGGGAGGGGGAGGGTTGGTGTGTGTGTCTGCGTTGATGTGTCTGTGTTCTAATGAGCGTCAAGTTTTGGACTAGTTGTATAAATATTTAACTCTGAGGTGTGTGTGTCCACAAAGCTGCTTTTGTCATTTCACAAGTCAATGGGTGTTGCTTCTGAGAGTTAGGGGGTTGATTTGACTTGAAGCCTTGGAAAAGAATTTCTTTTTTAGCATTCCAAGTTTATTTAATAGATGGCTATGAAGAGAATTGTGAGACTTTAAAAAAAAAATTCACAGACTATTTTTATTTTGTAG
Seq C2 exon
AATGAGTTGAGAGCCAGTGGTGGTGAAATCAAAACTCATAAATTGGAGCAAAAGGAGAATGTGCCCCCAGGTCCTGAGGTCTGCATCTCCTACCCAGATGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012342:ENSBTAT00000016376:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.935
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]