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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtgtgatttacattttggatttgttggaagttcaggcctgtttaattgttggatttgttgtaattgtatagatatgctatgtggatcaatttgtttcatttattttttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG

Basic information

species Vitis vinifera
transcript Vv18s0072g00720.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0072g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g34450.1 (Oryza sativa), 3'ss of exon 5
gttggtgtgatttacattttggatttgttggaagttcaggcctgtttaattgttggatttgttgtaattgtatagatatgctatgtggatcaatttgtttcatttattttttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG
                                  | |   |    ||   | | | | ||  | | | |    |       ||| |    |||||  ||   |    |     || |  | ||| | |||| ||| ||||||||||||||||||| |||||||||||||| |||||||| ||  |||| ||| |||| ||| ||||||||||||  ||||| || || |
-------------------------------gtataccaactaagttttctctagaacttcatttcactaatcatggtcattat-tactgcaattc-ttgagtgcggtaacgtaa-accgttgt-gcagGCCCAAGCTGAGAAGATCAGATCTGTTCAAGGAATGCTTCAGAGATTCCGGACATTATTTAACCTGCCAAGTGCAATTCGTGGGAACATTAGAAAAGGAG

upper sequence: Vv18s0072g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AC194296.3_FGT001 (Zea mays), 3'ss of exon 10
gttggtgtgatttacattttggatttgttggaagttcaggc-ctgtttaattgttggatttgttgtaattgtatagatatgctatgtggatcaatttgtttcatttattttttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG
                                 ||  |  | ||      |   | ||  | |||  ||||  |  |  | |  | | ||           || | | || || |||  | ||| |  |||| ||| |||| |||||||||||||| || ||||||||||||||||||||||| ||||| ||| | || ||| |||| |||||||  ||||| || || |
---------------------------------gtatatacactaagctgtctctagaactattgctattgcttcaagtttccttattgagtg--------cactaaattctt-aac--ttctggtacagGCCCAAGCTGAAAAGATCAGATCTGTTCAGGGAATGCTTCAAAGATTCCGAACACTATTTAACCTACCAAGTGCAATCCGTGGGAACATTAGAAAAGGAG

upper sequence: Vv18s0072g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G050647_T01 (Zea mays), 3'ss of exon 5
gttggtgtgatttacattttggatttgttggaagttcaggcctgtttaattgttggatttgttgtaattgtatagatatgctatgtggatcaatttgtttcatttattttttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG
                                  |  |  |     |   |  | ||  | |||  ||||  |  |  | |  | | ||           || | | || || |||  | ||| |  |||| ||| |||| |||||||||||||| || ||||||||||||||||||||||| ||||| ||| | || ||| |||| |||||||  ||||| || || |
-------------------------------gtatataaactaagctgtct-ctagaactattgctattgcttcaagtttccttattgagtg--------cactaaattctt-aac--ttctggtacagGCCCAAGCTGAAAAGATCAGATCTGTTCAGGGAATGCTTCAAAGATTCCGAACACTATTTAACCTACCAAGTGCAATCCGTGGGAACATTAGAAAAGGAG

upper sequence: Vv18s0072g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G112801_T01 (Zea mays), 3'ss of exon 9
gttggtgtgatttacattttggatttgttggaagttcaggc-ctgtttaattgttggatttgttgtaattgtatagatatgctatgtggatcaatttgtttcatttattttttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG
                                 ||  |  | ||   |  |   | ||  | |||  ||||  |  |  | |  | | ||           || | | || || |||  |  || |  |||| ||| |||| |||||||||||||| || ||||||||||||||||||||||| ||||| ||| | || ||| |||| | |||||  ||||| || || |
---------------------------------gtatatacactaagttgtctctagaactattgctattgcttcaagtttccttattgagtg--------cactaaattctt-aac--ttttggtacagGCCCAAGCTGAAAAGATCAGATCTGTTCAGGGAATGCTTCAAAGATTCCGAACACTATTTAACCTACCAAGTGCAATCCATGGGAACATTAGAAAAGGAG

upper sequence: Vv18s0072g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G044681_T01 (Zea mays), 3'ss of exon 5
gttggtgtgatttacattttggatttgttggaagttcaggcctgtttaattgttggatttgttgtaattgtatagatatgctatgtggatcaatttgtttcatttattttttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG
                                           || ||     ||   || |  ||    ||  | |||    |    ||   ||   | || | | || |     | | ||| |  |||| ||| |||| |||||||||||||| || ||||||||||||||||| || || ||||| ||| | || ||| |||| |||||||  ||||| || || |
-------------------------------------------gtatagaaactgagcttctc-tagaactactgctattgcttcaacattccttgagtgcactgaattct---gaacttctggtacagGCCCAAGCTGAAAAGATCAGATCTGTTCAGGGAATGCTTCAAAGATTTCGGACACTATTTAACCTCCCAAGTGCAATCCGTGGGAACATTAGAAAAGGAG

upper sequence: Vv18s0072g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G76850.1 (Arabidopsis thaliana), 3'ss of exon 5
gttggtgtgatttacattttggatttgttggaagttcaggcctgtttaattgttggatttgttgtaattgtatagatatgctatgtggatcaattt-gtttcattta--ttttttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG
                                                   |||||  |  || | |||   |   | |||| |||   ||  |||  |||   | |    ||||  | |||    || ||||||||| ||||||| ||||| ||||| |||||||||||||| |||||||| || || ||||| || || |||   |||||| | |||||||| |||||||
---------------------------------------------------gttggtgtgattctgatttacttcttttgct-tgtcactctctttcattttgctgaagcctttttcaaaatcacatt-tagGCTCAAGCTGAGAAAATCAGGTCTGTCCAAGGAATGCTTCAGAGATTCCGGACACTGTTCAATTTACCCAGTATCATTCGTAGCAGTATTAGCAAGGGTG

upper sequence: Vv18s0072g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G21170.1 (Arabidopsis thaliana), 3'ss of exon 5
gttggtgtgatttacattttggatttgttggaagttcaggcctgtttaattgttggatttgttgtaattgtatagatatgcta-tgtggatcaatttgtttcatttattttttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG
                                       |  ||| |  |     |   | ||||  || |   | | | |||   |    | || || ||    | ||||  | |  ||    |  ||||| ||| ||||||||||||| ||||| |||||||||||||| |||||||| || || ||||| || || |||  ||||||| | |||||||| || || |
---------------------------------------gtttgtatggtcac--gtactattgtttttttggtgttttcctagcctcttgctatctgcttagactgttttcaccattat----tcatagGCCCAAGCTGAGAAGATCAGGTCTGTACAAGGAATGCTTCAGAGATTCCGTACACTCTTCAATTTACCCAGTATAATTCGTAGTAGTATTAGCAAAGGCG

upper sequence: Vv18s0072g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S41_289V6.1 (Physcomitrella patens), 3'ss of exon 5
gttggtgtgatttacattttggatttgttggaagttcaggcctgtttaattgttggatttgttgtaattgtatagatatgctatgtggatcaatttgtttcatttattt--tttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG
                         | |||  |    |  |    || | |  ||     | ||     |  ||| ||||  ||||  ||  |     | || | ||    ||||    |   ||||||||||||||   |||   || |||||||| ||||||||||| ||  ||||| |||| || ||||||||||||||    ||||| |  |||||||| |||||||
------------------------ctattgtcataagattctcaattgaatactgtgaacggtg-----gcgtagttatg--atgttaattcaaactctacagtaatcgaatttcctggacattgttgtagGCTCAAGTGGAGCGTATAAGATCTGTTCAAGGAATGCTCCAGCGATTCAGAACCCTCTTCAACTTGCCTAGCATGATTCGCGCAAGTATTAGCAAGGGTG

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|30327435|gb|CD010697.1|CD010697
EST:     GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAG                         GCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTT
genomic: GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAGgttggtgtga ... gctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTT
EST: gi|32248056|gb|CD713875.1|CD713875
EST:     GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAG                         GCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGA
genomic: GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAGgttggtgtga ... gctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGA
EST: gi|32272073|gb|CD721232.1|CD721232
EST:     GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAG                         GCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCANAGATTCCGA
genomic: GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAGgttggtgtga ... gctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGA
EST: gi|32272496|gb|CD721655.1|CD721655
EST:     GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAG                         GCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCNAAGATTCCGA
genomic: GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAGgttggtgtga ... gctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGA
EST: gi|32248851|gb|CD714670.1|CD714670
EST:     GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAG                         GCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCANAGATTCCGA
genomic: GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAGgttggtgtga ... gctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGA
EST: gi|32249201|gb|CD715020.1|CD715020
EST:     GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAG                         GCTCANACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCANAGATTCCGA
genomic: GAGTCAGCTCTCTGGCTAATCGTGCCTTTGAGCCTCTATTTGAGAGACAGgttggtgtga ... gctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatgctatgtggatcaatttgtttcatttattttttcaacaatgctgttgtagGCTCAAACTGAGAAGATCAGATCTGTGCAAGGAATGCTTCAAAGATTCCGAACGCTATTCAACTTGCCTAGTTCAATTCGTGGGAGTATTAGTAAGGGTG
                 aatttgtttcatttat  TA-rich tract