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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttttctttttcacacaattttcatgatataatgaactccttacaggttgaatctctcaactagatgttaagaatttatgtggttggtattatc...

Basic information

species Vitis vinifera
transcript Vv01s0011g05630.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os03g50440.1 (Oryza sativa), 5'ss of exon 2
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttttctttttcacacaattttcatgatataatgaactccttacaggttgaatctctcaactagatgttaagaatttatgtggttggtattatc-
 || ||||| ||||| ||||| || || || ||||||||||||||||||||||| ||||| ||||  || ||||| || ||||||||||| |||||||||||  ||| | |         |||    | |  | ||| | |   | ||      || ||     ||||  ||| |     |  ||    || || ||    
TGAGAAGGGCATTGGTGATGGGACAGTGAGCTATGGAATGGATGATGCTGATGACATATATATGCGTTCCTGGACAGGAACTATCATTGGCCCTCCTAATgtatgttgtata--------acacccattagtagatattaactgcatttgcttctgtatgctcaaactgaatgatcttt-tacattcaatttgtcttgcag

upper sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G090172_T02 (Zea mays), 5'ss of exon 2
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttttcttt-ttcaca-caattttcatgatataatgaactccttacaggttgaatctctcaactagatgttaa-gaatttatgtggttggtattatc
 || ||||| ||||| ||||||||||| || ||||| ||||||||||||||||| ||||| |||| ||| ||||| || ||||||||||||||||| |||||  | |       |   || |   |  | ||| ||| | |    || |||    ||  |   || |   || | |||  |  ||||| | |  |        
TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcagaaatacccatagtgagatacataatacatt---ttctttattattttcaaacctgag--aggttttactgcgtttattttgcag--------

upper sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G022859_T01 (Zea mays), 5'ss of exon 2
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttttctttttcacacaattttcatgatataatgaactccttacaggttgaatctctcaact-agatgttaagaatttatgtggttggtattatc
 || ||||| ||||| ||||||||||| || ||||| ||||| ||||||||||| ||||  |||| ||| ||||| || ||||||||||||||||| || ||  | |       |  | || || |      | |||||| | |  ||      | | ||||  | || |||||||       |   |  || | |     
TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGACGATGCTGATGACATATTTATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAACgtatgctacagaaatacc-cataacta--gatacataatgcatttgttttg---ttattctcaaacctgagatgtttca---ctgcatttttcgcag----

upper sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA05G35000.1 (Glycine max), 5'ss of exon 2
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttttc--tttttcacacaattttcatgatataatgaactccttacagg-ttgaatctctcaactagatgttaagaatttatgtggttggtattatc
 || ||||||||||| ||||||||||| || |||||||||||||||||||||||||| ||||||||||| |||||||||||||| ||||| || |||  ||| || | |     | |||   | |||| |  |  ||| |  | ||| || ||   ||| |   || |      |  ||  |||||||| | ||  ||| |  
TGAGAAGGGAATTGGAGATGGAACTGTTAGCTATGGAATGGATGATGCTGATGATATCTACATGCAGTCCTGGACTGGGACTATTATTGGCCCCCCTGGTgtaagctgtcctgttctttggaaaaattgtgttactatgaaaacctctttgcaaaattgtagaacttactatttttatagaaatttatgagttt--tatcaa-

upper sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA07G24950.4 (Glycine max), 5'ss of exon 2
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagtt------ttttctttttcacacaattttcatgatataatgaactccttacaggttgaatctctcaactagatgttaagaatttatgtggttggtattatc
 || ||||||||||| ||||||||||| || ||||||||||||||||||||||| ||||||||||| || ||||||||||||||||| ||||| |||| ||| ||||      | || ||||| ||||| ||   ||       | |  ||| ||   | |         || || || ||  ||||||  ||||  | |      
TGAGAAGGGAATTGGGGATGGAACTGTTAGCTATGGAATGGATGATGCTGATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgctgtctgttatttttgacaca-ttggaatccccagctaacatccctatttgcttctatgacaaagtaaatattttgaatttcagtgggggctt-----

upper sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA08G04710.1 (Glycine max), 5'ss of exon 2
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttttc-tttttcacacaattttcatgata-taatgaactccttacagg-ttgaatctctcaactagatgttaagaatttatgtggttggtattatc
 || ||||||||||| ||||||||||| || || ||||||||||||||||||||||| ||||||||||| |||||||||||||| ||||| || |||  ||| || ||||   || ||   | || ||   | | | | || |  || || ||   ||| |   || |      |  ||  |||||| | |  |     |   
TGAGAAGGGAATTGGAGATGGAACTGTTAGCTACGGAATGGATGATGCTGATGATATCTACATGCAGTCCTGGACTGGGACTATTATTGGCCCCCCTGGTgtaagcttttctgttctttggagaaattctgttacaatgataacatctttgcaaaattgcagaacttattatttttatagaaatttaagagtctacggct---

upper sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA09G22600.1 (Glycine max), 5'ss of exon 2
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagtt-ttttctttttcacacaattttcatgatataatgaactccttacaggttgaatctctcaactagatgttaagaatttatgtggttggtattatc--
 || ||||||||||| ||||||||||| || |||||||||||||| ||||| || ||||||||||| || |||||||||||||||||||| || |||  ||| || |  | |||  ||  |  || |   || || || |   ||  |||   |||   | |  ||  | |   |    |  | |  |   |   |   ||  
TGAGAAGGGAATTGGGGATGGAACTGTTAGCTATGGAATGGATGACGCTGACGACATATACATGCAATCTTGGACTGGGACTATCATTGGGCCCCCTGGTgtaagctgctctctgcttttctgaaata--ataatttatttttctt-ttattagttatttttgacacattggaatctccagctaacatccctatcagcttcta

upper sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT1G23260.1 (Arabidopsis thaliana), 5'ss of exon 2
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttttctttttcaca--caattttcatgatataatgaactccttacaggttgaatctctcaactagatgttaagaatttatgtggttggtattatc--
 || || || ||||| ||||| ||||| || |||||||||||||||||||||||||| || ||||| || |||||||| || ||  ||||||||||||||||  || | |   | |  |      | |||  |  || | | | ||   |   | | || |      |    || || |  | || ||||   |  ||| |   
TGAGAAAGGTATTGGAGATGGTACTGTTAGCTATGGAATGGATGATGCTGATGATATTTATATGCAATCTTGGACTGGCACCATTCTTGGTCCTCCTAATgtatgtatctctctatcgatctctgagttttgttttagatttatctgtgttt-gatagagtaaa--gatgcaatttttaacacttttgtgagaga-attgttgg

upper sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT1G70660.1 (Arabidopsis thaliana), 5'ss of exon 2
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttttctttttcacacaattttcatgatataatgaactccttacaggttgaatctctcaactagatgttaagaatttatgtggttggtattatc---
 || || |||||||| ||||| || || ||||||||||||||||||||||||||||| |  ||||| || |||||||| || ||  ||||||||| |||||| |||||| |  || |||  | || |   | || |  ||     |||| | | | ||| |||    ||||| | || ||   |||   ||  || |      
TGAGAAAGGAATTGGAGATGGGACAGTGAGTTATGGAATGGATGATGCTGATGATATTTTGATGCAATCTTGGACTGGTACCATTCTTGGTCCTCATAATgttagttttcttcttctcaatctatctct-tcatcttttgtttaacttaaatgat-aatatctatggtagatttgaataaag-atgcattttttaatgctaaa

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|34550762|gb|CF518980.1|CF518980
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|32249291|gb|CD715110.1|CD715110
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|110399220|gb|EC965717.1|EC965717
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|161717210|gb|FC067216.1|FC067216
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|26266147|gb|CA817210.1|CA817210
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|37190155|gb|CF609504.1|CF609504
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|34548114|gb|CF516346.1|CF516346
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAAGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|30137020|gb|CB922358.1|CB922358
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|30298336|gb|CB975130.1|CB975130
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATTTACCAGTTGAAACTGTTCCGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|349830853|gb|FQ418161.1|FQ418161
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|34361563|gb|CF403148.1|CF403148
EST:     TATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: TATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC
EST: gi|34549812|gb|CF518044.1|CF518044
EST:     ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAAT                         ACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGCCAGGAC
genomic: ATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttt ... tgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGAC