Sequence
atgc intronic sequence ATGC exonic sequencegtaagaatatatgtcaaatttgcgggaatttaggtgtattaaatttgcatgcatttatgtatatctgctcttccaattctgttattttacataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAAGGCTTTGATTCACTCAGTGATCAGTGTTTTGCTGAAGTTACTGCAAGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0073g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G23810.1 (Glycine max), 3'ss of exon 5
gtaagaatatatgtcaaatttgcgggaatttaggtgtattaaatttgcatgcatttatgtatatctgctcttccaattctgttattttacataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAAGGCTTTGATTCACTCAGTGATCAGTGTTTTGCTGAAGTTACTGCAAGTA
| || | | ||| ||| ||| ||| | | | | | || | || | || |||| ||| | ||||||| ||| | |||||||||| ||||| |||||||||||||| |||||| |||| ||||| ||||| ||||||||||||||||||||||| ||| ||| |
---------------------gtaagaccactgtcgaatttg-tttacatattttt-tattttttttttcatgtaaatatgctattgtacttgaacagGTCAAATTGTTGTTTGCTGCTGAACGGAAAGTTTGTGATCAGATATTTGAAGGATTTGACTCACTTAGTGATCAGTGTTTTGCTGAAGTAACTACAAACA
upper sequence: Vv13s0073g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G33590.1 (Glycine max), 3'ss of exon 5
gtaagaatatatgtcaaatttgcgggaatttaggtgtattaaatttgcatgcatttatgtatatctgctcttccaattctgttattttacataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAAGGCTTTGATTCACTCAGTGATCAGTGTTTTGCTGAAGTTACTGCAAGTA
|||||| || ||| ||| | | |||| || |||| | |||| | | | | |||| ||| | ||| ||| ||||| ||||||| ||| | ||||||||||| || | |||||||||||||| |||||| |||||||||||||||||||||| ||||| ||||| || || ||| ||| |
gtaagatgat-tgtaggattggtgct-------gtgttttttttttgtcttcattattcttttaata-tctttcaaatatgtaattatacatgaacagGTGAAATTGTTGTTTGCTGGTGAGAGGAAAGTTTGTGATCAGATATTTGAAGGCTTTGATTCACTCAGTGAACAGTGCTTTGCGGAGGTGACTACAAACA
upper sequence: Vv13s0073g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G17500.1 (Glycine max), 3'ss of exon 2
gtaagaatatatgtcaaatttgcgggaatttaggtgtattaaatttgcatgcatttatgtatatctgctcttccaattctgttattttacataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAAGGCTTTGATTCACTCAGTGATCAGTGTTTTGCTGAAGTTACTGCAAGTA
| || | ||| || ||| ||||| | ||| | || | || | || ||| ||| | ||||||| ||| | |||||||||| |||||| |||||||||||||| |||||| |||| ||||| ||||| ||||||||||||| |||||||| ||| ||| |
---------------------gtaagaccactgtcaaatttg-ttcacatat-tttatctttatattttcatttaaatatgcaattgtacttgaacagGTCAAATTGTTGTTTGCTGCGGAACGGAAAGTTTGTGATCAGATATTTGAAGGATTTGACTCACTTGGTGATCAGTGTTTCGCTGAAGTAACTACAAACA
upper sequence: Vv13s0073g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G34000.1 (Glycine max), 3'ss of exon 5
gtaagaatatatgtcaaatttgcgggaatttaggtgtattaaatttgcatgcatttatgtatatctgctcttccaattctgttattttacataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAAGGCTTTGATTCACTCAGTGATCAGTGTTTTGCTGAAGTTACTGCAAGTA
|||||| | | | | ||| ||| | | ||| || |||| | |||| | | || |||| ||| | ||| ||| |||| ||||||| ||| | ||||||||||| || | |||||||||||||| |||||| |||||||||||||||||||||| ||||| || ||||| || ||| ||| |
gtaaga-tgaagatga---ttgtaggattggtgctgtgttt--tttgtcttcattattttttaata--tctttcaaatatgtaattatacacgaacagGTGAAATTGTTGTTTGCTGGTGAGAGGAAAGTTTGTGATCAGATATTTGAAGGCTTTGATTCACTCAGTGAACAGTGCTTCGCTGAGGTGACTACAAACA
upper sequence: Vv13s0073g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G03540.3 (Arabidopsis thaliana), 3'ss of exon 6
gtaagaatatatgtcaaatttgcgggaatttaggtgtattaaatttgcatgcatttatgtatatc-tgctcttccaattct-gttattttacataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAAGGCTTTGATTCACTCAGTGATCAGTGTTTTGCTGAAGTTACTGCAAGTA
| ||| | || | | | | || | | | | | | ||| || || | |||||| | ||||||||||| || | |||||||| ||| || |||| ||||| || ||||| | |||||| ||||| || ||||||||||||||||| |||||||| | || |
---------------------gtaagaactctagttaaggatggaaata-actttaacatgttttgttcacttttaactcaagatattttgt-tcaacagGTTAAATTACTCTTTGCTGGAGAAAGACAAGTATGTGACCAGATATTCCGAGGCTTCGATTCTCTAAGTGATCAGTGTTTTGCAGAAGTTACAGTGAGCAMapped 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|30297888|gb|CB974682.1|CB974682EST: AGGTTTTGGAGGCTAAGATTGGGAATTGGATTCATTTCATGCGGATTGCT GTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAA
genomic: AGGTTTTGGAGGCTAAGATTGGGAATTGGATTCATTTCATGCGGATTGCTgtaagaatat ... acataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAA
EST:
gi|30297709|gb|CB974503.1|CB974503EST: AGGTTTTGGAGGCTAAGATTGGGAATTGGATTCATTTCATGCGGATTGCT GTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAA
genomic: AGGTTTTGGAGGCTAAGATTGGGAATTGGATTCATTTCATGCGGATTGCTgtaagaatat ... acataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgcatgcatttatgtatatctgctcttccaattctgttattttacataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAAGGCTTTGATTCACTCAGTGATCAGTGTTTTGCTGAAGTTACTGCAAGTA
aattctgttattttac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaatatatgtcaaatttgcgggaatttaggtgtattaaatttgcatgcatttatgtatatctgctcttccaattctgttattttacataaacagGTTAAACTATTGTTTGCTGGGGAACGAAAAGTTTGTGATCAAATATTTCAAGGCTTTGATTCACTCAGTGATCAGTGTTTTGCTGAAGTTACTGCAAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG