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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgttgctttgctttacagtttcaattatgtgtgattgttcatcttagttgttctttcttagttttaattgatgcgatcggggtttagGAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAGATTAGCGAATTTGATTGGATGTTGCTGTGAAGGTGATGAGAGATTGCTCGTGGCAGAGTTTA

Basic information

species Vitis vinifera
transcript Vv08s0007g01520.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g01520.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S9_348V6.1 (Physcomitrella patens), 3'ss of exon 2
-----------gttcgttgctttgctttacagtttcaattatgtgtgattgttcatcttagttgttctttcttagttttaattg-atgcgatcggggttta--gGAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAGATTAGCGAATTTGATTGGATGTTGCTGTGAAGGTGATGAGAGATTGCTCGTGGCAGAGTTTA
           ||   ||||  |    | | || |     |||| ||| |  |     ||| |||   || || |||| |||     |  |   |||||||  ||| || ||| |    |||||  |  |  |  |  ||||| | | ||||||||||||||  |||||||||||||||||| | ||||| || || |||| ||
ttgaaggttttgtggattgccatctccttcggtgttg-ccatgtatgaattcttg---tagatgtggattatttgtttgaatcatgcggaaggagggtttacagGATGAGGCATGGAAGGTGGGTCAAGTCCGACACCAGAGACTGGTGAATTTGATTGGATACTGCTGTGAAGGTGATGAGCGTTTGCTTGTTGCGGAGTATA

upper sequence: Vv08s0007g01520.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ20301 (Selaginella moellendorffii), 3'ss of exon 1
gttcgttgctttgctttacagtttcaattatgtgtgattgttcatcttagttgttctttcttagttttaattgatgcgatcggggtttagGAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAGATTAGCGAATTTGATTGGATGTTGCTGTGAAGGTGATGAGAGATTGCTCGTGGCAGAGTTTA
                       |   |    |   ||||||     |    |  |||  | | ||    ||| || ||| |   |  |||| || ||       || ||  |  || || | |||||||| |  || ||||||||||| ||||| |||||||||||||| ||||| || || ||||  |
-------------------gtactgggtagaatccaattgttttcaatgagcgcacttgttaacttcgttttggtg-gattgacttccagGACGAGGCGTTTGGGGTCGGGCAAGTGCGGCACGAGAGATTGGTTAACTTGATTGGATGCTGCTGCGAAGGTGATGAGAGGTTGCTAGTCGCCGAGTACA

upper sequence: Vv08s0007g01520.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ23298 (Selaginella moellendorffii), 3'ss of exon 1
gttcgttgctttgctttacagtttcaattatgtgtgattgttcatcttagttgttctttcttagttttaattgatgcgatcggggtttagGAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAGATTAGCGAATTTGATTGGATGTTGCTGTGAAGGTGATGAGAGATTGCTCGTGGCAGAGTTTA
                       |   |    |   ||||||     |    |  |||  | | ||    ||| || | | |   |  |||| || ||       || ||  |  || || | |||||||| |  || ||||||||||| ||||| |||||||||||||| ||||| || || ||||  |
-------------------gtactgggtagaatccaattgttttcaatgagcgcacttgttaacttcgttttggtg-gtttgacttccagGACGAGGCGTTTGGGGTCGGGCAAGTGCGGCACGAGAGATTGGTTAACTTGATTGGATGCTGCTGCGAAGGTGATGAGAGGTTGCTAGTCGCCGAGTACA

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|33409978|gb|CF215605.1|CF215605
EST:     CTGTTAAGCGGTTTAACAAGTTGGCCTGGCCTGATTCTCGTCAATTCGTT                         GAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAGATTAGCGAATTTG
genomic: CTGTTAAGCGGTTTAACAAGTTGGCCTGGCCTGATTCTCGTCAATTCGTTgttcgttgct ... cggggtttagGAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAGATTAGCGAATTTG
EST: gi|161709384|gb|FC059253.1|FC059253
EST:     CTGTTAAGCGGTTTAACAAGTTGGCCTGGCCTGATTCTCGTCAATTCGTT                         GAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAG
genomic: CTGTTAAGCGGTTTAACAAGTTGGCCTGGCCTGATTCTCGTCAATTCGTTgttcgttgct ... cggggtttagGAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAG
EST: gi|110687454|gb|EE064880.1|EE064880
EST:     CTGTTAAGCGGTTTAACAAGTTGGCCTGGCCTGATTCTCGTCAATTCGTT                         GAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAGATTAGCGAATTTG
genomic: CTGTTAAGCGGTTTAACAAGTTGGCCTGGCCTGATTCTCGTCAATTCGTTgttcgttgct ... cggggtttagGAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAGATTAGCGAATTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattgttcatcttagttgttctttcttagttttaattgatgcgatcggggtttagGAGGAAGCAAGATCCGTGGGAAATTTGAGGAATGAGAGATTAGCGAATTTGATTGGATGTTGCTGTGAAGGTGATGAGAGATTGCTCGTGGCAGAGTTTA
                     tttcttagttttaatt  TA-rich tract