BtaALTD0000142-4/4 @ bosTau6
Alternative 5'ss
Description
Bos taurus matrin 3 (MATR3), mRNA. [Source:RefSeq mRNA;Acc:NM_001102486]
Coordinates
chr7:52218051-52229511:+
Coord C1 exon
chr7:52218051-52218151
Coord A exon
chr7:52218152-52218415
Coord C2 exon
chr7:52228420-52229511
Length
264 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
AATTGCTTATTTTTCTACAGAGT
3' ss Score
7.97
Exon sequences
Seq C1 exon
GAGTGGGTTGGTTCTTGGGCTGCTGCCTCTGCTGCCACCTCTTACCAGCGCCGTTGCTGCGGGGGATTGTGGGAGCCACCGCGTCCCGCTCGCTTGGAGAG
Seq A exon
GTACCTCTCGTTTTCCCTCTCCCTTTCTTCAAGGTAGGCGTGAAGCGGGTAAGAATCGGGGTGGGGTGGCCGGGGGCTCTCGGCGTCCGTCGGGAGGAGGCAGCGACAGCAACAGGGGCCGCGGGGAGCCGGCGGCGCGCCTTTCTTGCTCGCTCCCGTTCGCCTGCTCTGCCTCCCTCCGCGCTGCGTATGTGAGCCGCCTGATCGGCGGCCGCCATGTTAGGAGCTCAGTGGCGGCGCAACCAGCCTTCTCGGGTGGCGGAG
Seq C2 exon
AGTTGTCTGCTGGTTCTCAGCTTGAAGAAGATTCTACAGTCCTTATTGATCCTTTTTCTTGGCGTTACCATTTTTTGAAGCAAAGTTAACCTAGTTTTCTAGTTGAGCTTTCTTTTTGGCCATCTTTAAAAAAAAATTTTTTTTTTTTAATCTATAAACTAGACAAGAGATAGTTCTACAATGTCCAAGTCATTCCAGCAGTCATCTCTCGGTAGGGACTCACAGGGTCATGGGCGTGACCTGTCTGCAGCAGGAATAGGCCTTCTTGCTGCTGCTACCCAGTCTTTAAGTATGCCAGCATCTCTTGGAAGGATGAACCAGGGTACTGCACGCCTTGCTAGTTTAATGAATCTTGGAATGAGTTCTTCATTGAATCAACAAGGAGCTCATAGTGCACTGTCTTCTGCTAGTACTTCTTCCCATAATTTGCAGTCTATATTTAACATTGGAAGTAGAGGTCCGCTCCCTTTGTCTTCTCAACACCGTGGAGATGCAGACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006756-1-0,2-0,3-0,4-0-4/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.658
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
TCTGCTGCCACCTCTTACCAG
R:
CCTGTGAGTCCCTACCGAGAG
Band lengths:
300-564
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development