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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggttattgatgaatactcaatccatgtgttttgctttggaaacttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTAAACATTGAATG

Basic information

species Vitis vinifera
transcript Vv04s0023g02970.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os06g49990.1 (Oryza sativa), 3'ss of exon 13
gtgggttattgatgaatactcaatccatgtgttttgctt-tggaaacttctttatc--tattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTAAACATTGAATG
|||| || |   | |  |   ||     | ||||| | | || |||||   || ||  || ||| |      |||    |||||||  | |  |   ||    || |      |     |  || ||| |  | |  | | |   | | ||| |   ||         |||    | |||||  || |     ||| | |   || |||  | | |                             
gtggtttttaattaatcaaataagaatagagttttccctgtgcaaactgtattgtcattactcagaagtgaaaccgtt-tgttctgccttcactgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAGGTATGTA--------TTTGTCCTTGCTGCACATAGT-----ATGCAAAATCTGTAACACTGAGT-----------------------------

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os06g49990.2 (Oryza sativa), 3'ss of exon 13
gtgggttattgatgaatactcaatccatgtgttttgctttggaaacttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgtta-aatggcacaatcaattttcaatttcttcagt--tta-tgggtgaggagattcttaacaaagatcttgctgatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTAAACATTGAATG
                                                                                 || ||  || ||  ||    | | ||| |     ||  | | |||  | |   ||  ||| |  |    || |   ||      |   |  |||||    ||||| ||||| |||||||||||||||||||| || ||||| || || |||              
--------------------------------------------------------------------------------gtggtt-tttaattaatcaaataagaatagagttttccctgtgcaaactgtattgtcattactcagaagtgaaaccgtttgttctgccttcactgat-taacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG-------------

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA11G07910.1 (Glycine max), 3'ss of exon 13
gtgggttattgatgaatactcaatccatgtgttttgctttggaaacttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatact-gcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTAAACATTGAATG
                                                                            |||     |   | ||  ||| | ||    ||  |   | |   || | | |  |  | |  |   ||| ||||    | | |    |  || ||||| | |||||| |||||||||||||||||||||||  ||||||||||||| || |||| |           
---------------------------------------------------------------------------gtgtgtccttctttgtacttatattgtcctctgctattttaatagtttagtctactatgatgctt--tgaagagaccacttata----ttctggtgatatttgcagGTGATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG---------

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA01G37380.1 (Glycine max), 3'ss of exon 13
gtgggttattgatgaatactcaatccatgtgttttgctttggaaacttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatact-gcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTAAACATTGAATG
                                                                            |||     ||  | ||  |||   ||   |       |  | |||  | | |  |  | |  |   | | ||||    |||      |  || ||||  | |||||| ||||||||||| |||||||||||  ||||||||||||| || |||| |           
---------------------------------------------------------------------------gtgtgtccttttttgtacttatagtgtcccactatttcaatagttt--agtctgctatgatgctt--ttaagagaccactaatt----ttctggtgatgttagcagGTCATGAAGAATGGTTATATTGCAACAATAACTCTCTTCCAATCATGATGATG---------

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: PP1S58_197V6.1 (Physcomitrella patens), 3'ss of exon 13
gtgggttattgatgaatactcaatccatgtgttttgctttggaaac----ttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTAAACATTGAATG
                           ||| | |  | |||| ||     | ||| || ||| ||     ||    |     || ||| |  |||   | |||| | ||||   | |  |    ||||       ||| | |||    | | |  | ||  |||   |    ||  | | |      ||| | | | | || |   | || |  ||  |  |  ||||||| |    |||||    
---------------------------tgtttctgacgttggtaatgaaatacttcat-tatacagctagacagtgatttgtttttgact--tttgaatctttc-tgaaatcaaatagcctgacttca-------cagGTAATGAAGAATGGGCATATTG-CAACTGTGACTCTCTTCCAGAGCACCATGTAAAGTCG-TACAACACTACAG-GACATTGCTTTAGTCGTGCT----CATTGCCC-

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: PP1S7_418V6.1 (Physcomitrella patens), 3'ss of exon 13
gtgggttattgatgaatactcaatccatgtgttttgctttggaaacttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaaca-aagatcttgc--tgatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTAAACATTGAATG
                                                                              |  ||  | |   ||  |||||| |   |  ||  |||| || |||  | | ||  |||  |  ||     |||   |||  || || |||   |||| || |||||||||||||||||  | ||||||||||||||| | ||||||   |   || |         
------------------------------------------------------------------------------tattggcttcaaaataaatttcggttgttacca-gatcatttatcatgtgcctcgcttttggattgc----atttccaacgtaaaattttgtgttgattctacagGTAATGAAGAATGGGCACATTGCAACTGTAACTTTGTTCCAGAGCTATGTATAA--------

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|110716734|gb|EE091976.1|EE091976
EST:     ATCCATTTGGATCTACTTTTGTGTATGGTTACCAAAATGTTGCATTTGAG                         GTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA
genomic: ATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttatt ... gatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA
EST: gi|30330416|gb|CD013678.1|CD013678
EST:     ATCCATTTGGATCTACTTTTGTGTATGGTTACCAAAATGTTGCATTTGAG                         GTAATGAAGAATGGATATATTGCAACTGTAACTTTTTTCCAGTCGTGATTA
genomic: ATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttatt ... gatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA
EST: gi|30329939|gb|CD013201.1|CD013201
EST:     ATCCATTTGGATCTACTTTTGTGTATGGTTACCAAAATGTTGCATTTGAG                         GTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA
genomic: ATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttatt ... gatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTAAACATTGAATG
                        attcttaa  TA-rich tract