BtaINT0088434 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021024 | MACF1
Description
microtubule-actin crosslinking factor 1 [Source:HGNC Symbol;Acc:HGNC:13664]
Coordinates
chr3:107219199-107221295:-
Coord C1 exon
chr3:107221092-107221295
Coord A exon
chr3:107219431-107221091
Coord C2 exon
chr3:107219199-107219430
Length
1661 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
ATGGTCCAATATTTGTTTAGTTC
3' ss Score
4.51
Exon sequences
Seq C1 exon
CAACTGAGGGAATCCATTGCTGAACACAAACCTCATATTGATAAACTGCTAAAGATAGGCCCTCAACTGAAGGAGCTAAACCCTGAAGAGGGGCAAATGGTGGAAGAAAAATACCAGAAAGCAGAAAACACATATGCCCAAATAAAAGAGGAGGTGCGCCAGCGGGCCCTGGCTCTGGACGAGGCTATTTCCCAGTCGGCTCAG
Seq A exon
GTATGTCTGTGTCTTAAACTCATATAACCTTCAGCTGTCCTTTAGTCTAAGCAGGAGGCTCTGTATCAGTATGTCCCTATGCCCAGGAATGTCCAGACCATGTATGCTGGTGATACATTATCAAGAGACTGGGAGCCTTTGCCAATTTGCATTTTTATCCCAGGAAGCATTGGTTACACTGACAACTAGGAGGAGGGTGAAATGCATCTTGGCTGGTGTATCAATTGTCTGTATGGTTTTCTTGAAAACTTGATATCGTGGTGATCCTTTAACAGAGGTGATTTTGGGTAAATTCATCTTGAAGCAACAAATACCTCAAGTGAAGTCAGATTGCTGTTGGACCTGTTGCTTTCAAGATGTAGACAGCACGTTCATTTTCCTACTCAAGAGGCCACCAGCTTGCTCCTCGTTCAGAGAAAGATACTTGACTAGGGAGAAGTTAGAGCCAAGGAGAAACAAGCCACCAGCAGTGGAGTTTAAAGCATGTAACTACATACTTTTCAACTAATATATTACTGTTATGTCTGGGTAATTTATTCCTATGTTTAGTCAATATTCTTGGTTAATATTTGTACTTACTCAAGTTTCTCCCCCACCTTCCGTCCCATCTCTCACTCACATTGTGGAATGTGTTACTTTGTGTTGTTGCTGCCTGCTCCTGTCTTCCCCACATCGTCACATTTCATTGTTGTGTTGACTGCGCCCACCATTACAGATTACAGAGGTAAGGTACCCACCCCCATTGGGATTAGGGTGTTCTTATGAAGCTGAGAATTGAGAGGGTTATTTACAAGGAAACTTGCCTTAACTTTAGTGGTATAAATTTTACTAATGCAGTCTATTGTACCAGTTTCATTTGGGGCATAACCTATAAGTGAGGGAGTGATGGGAAGGGATTTTGTTTACCTTGTTATTTCCTATATGACATTTAACAGTTGGTGAGCCTTATTCTAGTTAATGAATCCAGAGTTGGCTTTAGGGGGCAGGCTTATCTATTTTGCTCCCTTTTCTCCCCTCTCTGCTTCATATTATAAATCACAACTTTACAATTATAGATATGTTATAAAACATATAGAAAAGTGGGAAGAGTAGTTGATCTCTTGGAATAAGGTTAGATTTGACCTTCCCCAATTATCTTTCATCATGCCAACATTTTCCTTTCTCACTATTACATCCGGTGGGTTGTTGAATTGCATGCCATGGTACTTTTAAACTCCAAGTCATGTAGCATATTGAGTTCCCCATCCATTTACACAGTTGGTGGAGGGCATCTAACTTGTTGGTCTAATCTGTTGCATGCAGCTGTCATCTGAGATGTTGACACACTGACTCTCACTGGTTCCATAGTCTTGTCCCTTTTTCATCACATTAGTTGGAATAGGGAAACTATTGTAGCACCGTTAACAATGTGAGTTGATTTTTGGTATATGAAGTAATAGCTTTTTGAGTCATCAAATACTTTTCTGATGGTCCAGCTCTAGTGTACTGTACCCAAAATGGTTTCTTAGCCACAGCCAACACTTGACAGTCCTAGGGCTAGTTTGAGCACAGGTTTTATCCTAAACAGGAGTAAATATTTACACTGGCTTTAATCCCTAACGTTTACCCCAGAAGTGTGATGCAGTACTGCTGTGATGGCTAATGGTCCAATATTTGTTTAG
Seq C2 exon
TTCCATGATAAAATTGAGCCCATGTTGGAAACTCTGGAGAGTCTTTCCTCTCGCCTGCGAATGCCACCGCTGATTCCTGCTGAAGTGGACAAGATCAGAGAGTGCATCAGCGAGAACAAGAGTGCCACCGTGGAGCTGGAAAAACTGCAGCCATCCTTCGAGGCCCTGAAGCGCCGTGGAGAAGAACTCATTGGGCGATCTCAAGGAGCTGACAAGGATCTGGCTGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021024:ENSBTAT00000033270:68
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.338 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(56.6=88.2),PF060097=Laminin_II=PU(52.0=77.9),PF0043516=Spectrin=PU(0.9=1.5)
A:
NA
C2:
PF060097=Laminin_II=PD(43.1=56.4),PF0043516=Spectrin=FE(69.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAGAGGGGCAAATGGTGG
R:
CAGCCAGATCCTTGTCAGCTC
Band lengths:
348-2009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]