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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtatttttttatttccatcaagatagtcatcagctttgttcttgtttagattttttttttttacccttgttttctttctgccttttcttggtttgtttttgatctttgaattatttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT

Basic information

species Vitis vinifera
transcript Vv18s0001g15330.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G12740.1 (Glycine max), 3'ss of exon 1
gtgggtatttttttatttccatcaagatagtcatcagctttgttcttgtttagattttttttttttacccttgtttt-ctttctgccttttcttggtttgtttttgat-ctttgaattatttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT---------------------------------
                           |||   | ||     |||   |||| || | ||| | | ||  || |||| || | |  | ||   |  |    || || | | |    ||  |||  ||||| |||||| |||||||||||||||||||||||||| |                                 
--------------------------gtaggtttaagaccctttcagttttacatgtgtttctctcacttttttttttctctatatccttgacttctgaacttgtggttcctcttctttgttggtacagGGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTGTATGCATTACATAGCTGCTTCCTTCCCTCTTT

upper sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G12740.4 (Glycine max), 3'ss of exon 1
gtgggtatttttttatttccatcaagatagtcatcagctttgttcttgtttagattttttttttttacccttgtttt-ctttctgccttttcttggtttgtttttgat-ctttgaattatttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
                           |||   | ||     |||   |||| || | ||| | | ||  || |||| || | |  | ||   |  |    || || | | |    ||  |||  ||||| |||||| |||||||||||||||||||||||||| |
--------------------------gtaggtttaagaccctttcagttttacatgtgtttctctcacttttttttttctctatatccttgacttctgaacttgtggttcctcttctttgttggtacagGGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT

upper sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G42040.1 (Glycine max), 3'ss of exon 1
----------------gtgggtatttttttatttccatcaagatagtcatcagctttgttcttgtttagatttttttttttt--acccttgttttct--ttctgccttttcttggtttgtttttgatctttgaattatttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
                 | ||| ||   | | || | |   | |  | |||| | |  |    |||||  |||||||||| |  |  ||||  ||||     ||   || ||  |||| |  ||| || |    ||  |||  ||||| |||||| ||||||||||||| |||||||||||| |
gttggtttaagatccttttggttttacatgagtttctttc-gttttttatcaccctgatgaaagtttaagttttttttttctctatacttggcttctgaacttgtggttcctctgtttctcattgttcctc---tttattggtacagGGAATGCTTCCGCTCTGTTCCTATTCTTGGCTCCAGT

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|110731976|gb|EE106858.1|EE106858
EST:     GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTG                         GAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
genomic: GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTGgtgggtattt ... tttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
EST: gi|110387851|gb|EC952549.1|EC952549
EST:     GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTG                         GAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
genomic: GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTGgtgggtattt ... tttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
EST: gi|33403642|gb|CF209269.1|CF209269
EST:     GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTG                         GAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCTACT
genomic: GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTGgtgggtattt ... tttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
EST: gi|294966391|gb|GW839498.1|GW839498
EST:     GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTG                         GAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
genomic: GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTGgtgggtattt ... tttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
EST: gi|27755280|gb|CB036035.1|CB036035
EST:     GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTG                         GAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
genomic: GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTGgtgggtattt ... tttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
EST: gi|110374121|gb|EC938672.1|EC938672
EST:     GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTG                         GAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
genomic: GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTGgtgggtattt ... tttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
EST: gi|110699794|gb|EE077102.1|EE077102
EST:     GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTG                         GAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
genomic: GTGAAGGATGGATGCTCATCATGCTCTTCATTTCACGTTTGGGATTTTTGgtgggtattt ... tttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttctttctgccttttcttggtttgtttttgatctttgaattatttgaaacagGAAATGCTACCGCTCTGTTCCTCTTCTTGGCTCCACT
                            ttttgat  putative branch site (score: 4)
                           tttttgatctttgaat  TA-rich tract