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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcatatcaataattgcccacttacatctacttaatcaatttgtttattttcactaatgtattatccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTGTGTCTATATATGATAGTTCTACAGACAGTAAGGTTGGTGTGGGATCCTC

Basic information

species Vitis vinifera
transcript Vv04s0023g02970.t01
intron # 6
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 6
lower sequence: GLYMA11G07910.1 (Glycine max), 3'ss of exon 6
---------gtatcatatcaataat----------tgcccacttacatctacttaatcaatttgtttattttcac---taatgtattatccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTGTGTCTATATATGATAGTTCTACAGACAGTAAGGTTGGTGTGGGATCCTC
         ||||||| |  | | |          ||       |    | ||   || ||||   ||| || ||   |  | | |||      |||| ||| ||||| || ||||| || ||||| || || ||||||||||||||||| |||||||||||||| ||  | |  |  ||||||||||||||  ||| 
gtatttattgtatcatctagaaattgaaattgaaatgttttaccaagctttctagttctattttaatatgtttacattttctcttttaattatgacagTGGAATTGCCATTGGAGTTTCCTGATGGGACCACGCCAGTTACATGCCGTGTTTCTATATATGATAGCTCCTCTGGTAAGAAGGTTGGTGTGGGGGCCTT

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G37380.1 (Glycine max), 3'ss of exon 6
---------gtatcatatcaataattgcccacttacatctacttaatcaattt--gtttattttcactaatg-tattatccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTGTGTCTATATATGATAGTTCTACAGACAGTAAGGTTGGTGTGGGATCCTC
          |||| | |  | |||||     ||  |   | ||    ||||    | |  |  || |   | | |||      |||| ||| ||||| || ||||| || ||||| || || ||||||||||| ||||| |||||||||||||| ||  | |  |  ||||||||||||||  ||| 
gtatttattatatcttcttga-aattgaaatgttgtactgagttttctaattctaatatgctaacattttcgcttttaattatgacagTGGAATTGCCATTGGAGTTTCCTGATGGGACCACCCCAGTTACATGTCGTGTTTCTATATATGATAGCTCCTCTGGTAAGAAGGTTGGTGTGGGGGCCTT

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G51130.1 (Arabidopsis thaliana), 3'ss of exon 6
---------------gtatcatatcaataattgcccacttacatctacttaatcaatttgtttattttcac-taatgtattatccccaaca--gCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTGTGTCTATATATGATAGTTCTACAGACAGTAAGGTTGGTGTGGGATCCTC
               |  ||   | ||   |||   |  |   |   |||   | || | |   || |||  |  | | || |||   |||  ||||   | || |||||||| |||||||| || || ||||| |||||||| || ||||||||||| |  || |  ||||  || |||||||| |||   | 
gtttgttcttctccggactccagtgaaattttgtttatattttttgtcttgtccgatatctaacttctcagatttttttttctcctttacaaagCGGCACTACCGTTAGAGTTTCCAGATGGCACCACACCAGTAACATGCCGGGTCTCTATATATGACAACTCAAGTGACAAAAAAGTTGGTGTCGGAAAATT

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S7_418V6.1 (Physcomitrella patens), 3'ss of exon 6
gtatcatatcaataattgcccacttacatctacttaatcaatttgtttattt---tcactaatgtattatcccca---acagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTGTGTCTATATATGATAGTTCTACAGACAGTAAGGTTGGTGTGGGATCCTC
||      |  | |    |  |||    | |  || |||| |||| | || |    |||| |  |     | | |    ||||||||||||| || ||||||||||||||||| || |||||||  |  || || |   | ||||||||  |    |   ||   |||||||| ||  |  |
gtgagcgtttgacacacacaaactgtgctattgttcatcattttgctaatgtgtaccactgacatggacacgctatatgcagCGGAGTTGCCGTTGGAGTTCCCAGATGGTACCACCCCAGTTATGTCTCGAGTATTCGTTTATGATAGCGCAGTCGGAGGTGGAGTTGGTGTCGGTGCTCC

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|161713938|gb|FC062598.1|FC062598
EST:     CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAG                         CGGAGTTGCCTCTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
genomic: CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAGgtatcatatc ... tccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
EST: gi|30133248|gb|CB918587.1|CB918587
EST:     CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAG                         CGGAGTTGCCTCTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
genomic: CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAGgtatcatatc ... tccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
EST: gi|110698037|gb|EE075591.1|EE075591
EST:     CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAG                         CGGAGTTGCCTCTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
genomic: CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAGgtatcatatc ... tccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
EST: gi|110718343|gb|EE095064.1|EE095064
EST:     CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAG                         CGGAGTTGCCTCTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
genomic: CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAGgtatcatatc ... tccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
EST: gi|294963767|gb|GW836617.1|GW836617
EST:     CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAG                         CGGAGTTACCTCTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
genomic: CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAGgtatcatatc ... tccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
EST: gi|110730101|gb|EE106793.1|EE106793
EST:     CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAG                         CGGAGTTGCCTCTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
genomic: CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAGgtatcatatc ... tccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
EST: gi|27586273|gb|CB008968.1|CB008968
EST:     CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAG                         CGGAGTTGCCTCTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG
genomic: CGCTTTTCCAATTCCCACCCAGTATACAGATTGCTGCCATGATGGAGAAGgtatcatatc ... tccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttacatctacttaatcaatttgtttattttcactaatgtattatccccaacagCGGAGTTGCCTTTAGAGTTCCCAGATGGTACTACTCCAGTTACATGCCGTGTGTCTATATATGATAGTTCTACAGACAGTAAGGTTGGTGTGGGATCCTC
                                cactaat  putative branch site (score: 2)
                                          ttatcccc  putative PPT
            ttaatcaatttgttta  TA-rich tract