Sequence
atgc intronic sequence ATGC exonic sequence...attctacttttttattctttttgatttttttttttcttttgaaatgttttacaaccctcagtacactgagatataacccatcctgtttgtgctcatctagGGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACATCCCCACCTCTGTAAGTTGCTTGGTTTCCATGCGCGTGAGGGATCTGACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0058g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G32800.1 (Glycine max), 3'ss of exon 2
attctacttttttattctttttgatttttttttttcttttgaaatgttttacaacc-ctcagtacactgagatataacccatcctgtttgtg----ctcatctagGGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACATCCCCACCTCTGTAAGTTGCTTGGTTTCCATGCGCGTGAGGGATCTGACC
|| || ||| |||||||| | | ||| || | | | | || || || | || | | | ||| |||| ||| | |||| || |||||||||||||| || || || || |||||||| ||||||||||| ||||||||||| ||||| || || ||||| |||| || || || |
--ccttgcattgagaggtttatgatttttctccctagac--aaaagtctgaaagcagctgagaactttctgacgtggttta-cgtgtatgtgatgcctcttgcagGGATTGAAGGAATTCATAAATGAAGTTAATACCCTTGCATCTTTGCAACATCCACACCTCTGTAAATTGCTAGGATTTCATGCATGTGATGGTTCGGAAC
upper sequence: Vv08s0058g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G44630.1 (Glycine max), 3'ss of exon 1
attctacttttttattctttttgatttttttttttcttttgaaatgttttacaaccctcagtacactgagatataacccat-cctgtttgtgctcatctagGGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACATCCCCACCTCTGTAAGTTGCTTGGTTTCCATGCGCGTGAGGGATCTGACC
|| || | | || || || || | ||| | || ||| | | ||| ||| || | || | | | | ||| || | |||| || |||||||||||||| || || || || |||||||| ||||||||||| |||||||||| ||||| || || ||||| || ||||| || || |
-ttagcattatgtgtttttgtttatctctttgggacattgaaaaatgctcaatcacctgagtgcattctgacgtggtctaaatgaatctgtcttctttcagGGCTTGAAGGAATTCATAAATGAAGTTAATACTCTTGCATCTTTGCAACATCCAAACCTCTGTAAATTGCTAGGATTTCATGCACGAGAGGGTTCAGAAC
upper sequence: Vv08s0058g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G41160.1 (Glycine max), 3'ss of exon 2
-attctacttttttattctttttgatttttttttttcttttgaaatgttttacaaccctcagtacactgagatataacccat-cctgtttgtgctcatctagGGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACATCCCCACCTCTGTAAGTTGCTTGGTTTCCATGCGCGTGAGGGATCTGACC
| | | | || |||||||| ||||| | ||||| | | ||| | ||| || | || | | | | ||| || | |||| || |||||||||||||| || || || || |||||||| ||||||||||| |||||||||| ||||| || || ||||| || ||||| || || |
tagcgttatgtgtttttctttttc-tttttgggacattgcaaaaatgctcaatcacc-tgagtgcattctgaagtggtctaaatgaatctgtcttctttcagGGCTTGAAGGAATTCATAAATGAAGTTAATACTCTTGCATCTTTGCAACATCCAAACCTCTGTAAATTGCTAGGATTTCATGCCCGAGAGGGTTCAGAAC
upper sequence: Vv08s0058g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G04340.1 (Glycine max), 3'ss of exon 2
attctacttttttattctttttgatttttttttttcttttgaaatgttttacaacc-ctcagtacactgagatataacccatcctgtttgtg----ctcatctagGGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACATCCCCACCTCTGTAAGTTGCTTGGTTTCCATGCGCGTGAGGGATCTGACC
|| || ||| |||||||| | | ||| || | | | | || || || | || || | | | ||| |||| ||| | |||| || |||||||||||||| || || || || |||||||| |||||||||| |||||||||| ||||| || || ||||| ||||| || ||||| |
--ccttgcattgagaggtttatgatttttctccctagac--aaaagtctgaaagcagctgagaactttctgacatggtcta-cgtgtatgtgatgtctcttgcagGGATTGAAGGAATTCATAAATGATGTTAATACCCTTGCATCTGTGCAACATCCAAACCTCTGTAAATTGCTAGGATTTCATGCACGTGATGGTTCTGAACMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|71878162|gb|DT027217.1|DT027217EST: GTTCAAAAAAGCTGGAAGCCACTGTTACCCGGCTTCACCCATCCACCCAG GGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACAT
genomic: GTTCAAAAAAGCTGGAAGCCACTGTTACCCGGCTTCACCCATCCACCCAGgtatcacgac ... gctcatctagGGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACAT
EST:
gi|77579839|gb|DV218795.1|DV218795EST: GTTCAAAAAAGCTGGAAGCCACTGTTACCCGGCTTCACCCATCCACCCAG GGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACAT
genomic: GTTCAAAAAAGCTGGAAGCCACTGTTACCCGGCTTCACCCATCCACCCAGgtatcacgac ... gctcatctagGGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttacaaccctcagtacactgagatataacccatcctgtttgtgctcatctagGGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACATCCCCACCTCTGTAAGTTGCTTGGTTTCCATGCGCGTGAGGGATCTGACC
atataac putative branch site (score: 3)
ctcatct putative PPT
agatataa TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attctacttttttattctttttgatttttttttttcttttgaaatgttttacaaccctcagtacactgagatataacccatcctgtttgtgctcatctagGGTTTAAAGGAATTCATAAACGAGGTAAACACGCTTGCATCATTGCAACATCCCCACCTCTGTAAGTTGCTTGGTTTCCATGCGCGTGAGGGATCTGACC
- - - - - - - - - - - - - - - - - - - - - - - - - - -accctca