BtaINT0088998 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019075 | MAP1D
Description
Bos taurus methionyl aminopeptidase type 1D (mitochondrial) (METAP1D), mRNA. [Source:RefSeq mRNA;Acc:NM_001046342]
Coordinates
chr2:24526035-24527738:-
Coord C1 exon
chr2:24527589-24527738
Coord A exon
chr2:24526184-24527588
Coord C2 exon
chr2:24526035-24526183
Length
1405 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGCG
5' ss Score
2.19
3' ss Seq
TTCTTTATTTAATATTTCAGGTT
3' ss Score
9.88
Exon sequences
Seq C1 exon
CACATAAAGAAGCCAGACTATGTGACGACAGGAATTGTACCCGACTGGGGAGACAGCATAGAAGTTAAGAATGAAGATCAGATTCAAGGGCTTCTCCAGGCTTGTCAGCTGGCCCGACATGTCCTCCTCTTGGCCGGGAAGAGTTTAAAG
Seq A exon
GTGGCGTCTCACGAAGCCTCGCAAGACTTGCATAAAGGGCAGCAGACCTTCCCCACTTTTCCTTATTTCCTTTATCTCTTCTTTTGTACACATCTAATTTGTTAAAAATTAAGTCAAACCTTGGGATAGGGGACAGGAATTGTGTATTTTCTGTTTATTCAAAAGATAATTTAAAATCCAAAGTCAATGTTAAGTAGCAGAATTCTGAAGATAGCTTGAGCTCAGTCAGCCTATCCAAGTTGCTCCATGACAGACAGCTTTGACTTCTGCCCTCTTATTCCTGCCTGTAATTTCTGCTTTTATTCCCCACATTATTTCTTGTGCCTGAAGAGTTGCTTTGCCTCATACTTTGGCTCCTATTTTCTTGCATTGGTTCTGCAAAGAAAGATCAGACCAGACACACCAAGCTGTAGGTAATTCAGCAATGTAATTGTATGCAACTATCTTACTATAAGATTTAGGTCTTTCAGAATAATCTGAAACTGAATCTGAATCCTGCTATGTAAGGATCATAAAAGAAAATACCAGCCTATAGTTTCCAAAAGGTGGGCTGCATTTAGGAAATGAGACTCAAATATGAAACACTTGGTGTAACATCTGTGTGATAGACTTGTTATCAATGAACCATAATGTGAATATAAAATAACATAAAGAAAACAGTTGAAGGAATGTTAATTTTCAATAAAAGATCTTGTTTTAGACTTTTACTTATAATATATGAGTTTATGGAGACAGTGTTTATGTGCCCACAAAACTTGATTTTAGTTTTCTTTTAGTTTGGGAGCAATTTGGGTATCTTCTAGTAAGGGAAAAATATTTTTAAAAACACACTGATTTGTTTTGGTATGAAAGAAATCAAGATCAGTGAACCAGAATCTCTACAAAATGTATCAAACTAATTTTTTCAGATGATGATCCATAACCTCCATGCCATCACTGCAAAACCCACGTAATGTTTTGCTGGGATAAAAAGGCATGGGTCGACCTACTTTTCAAGGTTTGTCACCTCAACTGACGATCCTTTTGACAATTTATATGCCTTGATCAGCCGAGGCCACTAACCTATTGAGGAAGAGGAAGGAGTTGCCTCAGAACGTGTTTTTGAAATCTCCAGGCTAAAAAGGAATCCTGTCATTTAATGATTCACAAATGATTGAAAGGATCTTAGAGTTTAAAATGGCCATTTCCTAATAGCCCATAACACCACCATATACCCAAACAATTGTCAGAAAGGCACAGTTTAGGATTTTGGTGTTAATCATAATTAATTAAAATGTTGTATCACAAGCTTATCACAGTAAATTTGTACAACCTCATCTGGAAGGGCTGTAGCTATAGGCACAGTCAATAAATACAGGAGATCTCTCCAACTGTCGCTTCACAGTTTCTTTATTTAATATTTCAG
Seq C2 exon
GTTGACATGACAACTGAAGAGATAGATGCTCTTGTTCATCAGGAAATAATCAGTCATGATGCCTACCCCTCACCTCTAGGCTATGGAGGGTTTCCAAAATCTGTTTGTACCTCTGTAAACAACGTGCTTTGTCATGGTATTCCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019075:ENSBTAT00000025394:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0055719=Peptidase_M24=PU(9.2=42.0)
A:
NA
C2:
PF0055719=Peptidase_M24=PU(23.0=97.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGAAGCCAGACTATGTGACGAC
R:
CTGTCAGGAATACCATGACAAAGC
Band lengths:
294-1699
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]