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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagttctttcatttttttttagaattaatcatggataatgcttacatctcatcatatttaatttctagttgttcgttatacaattcgatgggaattttgtgtacaagtttcaatttcatataatcatttgcaagtggtggatctgtgacacattttccttttgtcaacagGAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTATGGTAGTGAAATG

Basic information

species Vitis vinifera
transcript Vv04s0044g01290.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G39110.1 (Glycine max), 3'ss of exon 3
gtagttctttcatttttttttagaattaatcatggataatgcttacatctcatcatatttaatttctagttgttcgttatacaattcgatgggaattttgtgtacaagtttcaatttcatataatcatttgcaagtggtggatctgtgacacattttccttttgtcaacagGAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTATGGTAGTGAAATG
                                    |||| ||   || |     ||    |||| |   ||||  ||  |   ||| ||     | |||  |     |||   ||| ||||      |    | |     ||||||  ||  || | | |||||   ||||||||  |||| |||||||| |||||||||||||| ||||||||||||||||| |||||  ||
-----------------------------------gtaattctattatttt----taaaagatttatgcatgttgctttaagccttcaattc---tgttgcat-tggattttgttttgatatgtctgatcatcattta---atctgtaccatgttcttcatttgtttgcagGAGATCCATTTGCTCAGTCAGCTTTCACATCCAAACATCGTTCAATACTATGGGAGTGATTTG

upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G16670.2 (Glycine max), 3'ss of exon 3
gtagttctttcatttttttttagaattaatcatggataatgcttacatctcatcatatttaatttct--agttgttcgttatacaattcgatgggaattttgtgtacaagtttcaatttcatataatcatttgcaagtggtggatctgtgacacattttccttttgtcaacagGAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTATGGTAGTGAAATG
||| ||||   ||||  |   | ||||    ||  || |||||   | | ||| |||||  | || |  || | ||| ||   |  ||  || ||| |||  | |   |  | |||||    |||||  |||  |        |  | | |||  || ||  ||||   ||||||||||||||| || | ||| |||||||| |||||||| |||||||||||||| |||||| ||
gtaattctgatatttcctaagaaaatt---tatacatgatgctc-taacacattatattgtacttttgcagctcttctttgcgctgttgcattggagtttgctttgatatgtccaatt----ataattttttatagtccacaaagttataaca--ttctctatttgattacagGAGATAAATTTGCTAAATCAGCTTTCACACCCAAATATTGTTCAATACTATGGGAGTGAACTG

upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G15870.1 (Glycine max), 3'ss of exon 4
gtagttctttcatttttttttagaattaatcatggataatgcttacatctcatcatatttaatttctagttgttcgttatacaattcgatgggaattttgtgtacaagtttcaatttcatataatcatttgcaagtggtggatctgtgacacattttccttttgtcaacagGAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTATGGTAGTGAAATG
                                                 | ||  ||||  |||| ||    ||  |   |   | |  |  |  ||   |      |  |    ||  | | |||||          |  ||||||  ||  || | | |||||   ||||||||  |||| |||||||| |||||||||||||| || |||||||||||||| |||||  ||
------------------------------------------------gtaattctatt--atttttaaagatttat-gcatgttgccttaagccttcaatactgttgcattggatttctctgatcatc-------atttaatctgtaccatgttcttcatttgtttgcagGAGATCCATTTGCTCAGTCAGCTTTCACATCCAAACATTGTTCAATACTATGGGAGTGATTTG

upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 3
gtagttctttcatttttttttagaattaatcatggataatgcttacatctcatcatatttaatttctagttgttcgttatacaattcgatgggaattttgtgtacaagtttcaatttcatataatcatttgcaagtggtggatctgtgacacattttccttttgtcaacagGAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTATGGTAGTGAAATG
   ||  ||      |||  ||  |  | | ||  || |||||  || | |||  || ||   ||  || | ||| || | |  ||  || ||| |||  | ||  |  | |||||    || ||  |||  |     |     | | ||| ||| ||  ||||   ||||||||||||||| || | ||| |||||||| || ||||| ||||||||| |||| |||||| ||
---gtcattctgacatttcctaagaagatttatacatgatgctc-caacacatagtactt---ttgcagctcttctttgtgctgttgcattggagtttgctttaatatgtccaatt----atgat--tttatagtccataatgttataacatattctctatttgattacagGAGATAAATTTGCTAAATCAGCTTTCACACCCTAATATTGTTCAATACCATGGGAGTGAACTG

Mapped 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|110698751|gb|EE076609.1|EE076609
EST:     TGATCATACATCACAAGAATGCCTTAAGCAACTGAACCAG                         GAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCGATACTAT
genomic: TGATCATACATCAAAAGAATGCCTTAAGCAACTGAACCAGgtagttcttt ... ttgtcaacagGAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTAT
EST: gi|161714297|gb|FC063543.1|FC063543
EST:     TTGTTTCAGATGATCATACATCAAAAGAATGCCTTAAGCAACTGAACCAG                         GAGATAAATTTACTCAGTCAACTTTCACATCCAA-TATCGTTCAATACTAT
genomic: TTGTTTCAGATGATCATACATCAAAAGAATGCCTTAAGCAACTGAACCAGgtagttcttt ... ttgtcaacagGAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTAT
EST: gi|71863025|gb|DT012080.1|DT012080
EST:     TTGTTTCAGATGATCATACATCAAAAGAATGCCTTAAGCAACTGAACCAG                         GAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTAT
genomic: TTGTTTCAGATGATCATACATCAAAAGAATGCCTTAAGCAACTGAACCAGgtagttcttt ... ttgtcaacagGAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatataatcatttgcaagtggtggatctgtgacacattttccttttgtcaacagGAGATAAATTTACTCAGTCAACTTTCACATCCAAATATCGTTCAATACTATGGTAGTGAAATG
                                   cattttccttttgtc  CT-rich tract
     taatcattt  TA-rich tract