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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGCATGATTTGCACCTCATCCACACTGACTTGAAGCCTGAGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAGgtatatctacttctgttctggtagcttttcaatttgtttgcacttctgttgttctttcaatcaagaccttattgttgatattcaggcttttccttttccctgttccctttccatatcagttattatctggtcataatgtttctttctaattgcag

Basic information

species Vitis vinifera
transcript Vv01s0137g00580.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 5'ss of exon 7
TCATGCATGATTTGCACCTCATCCACACTGACTTGAAGCCTGAGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAGgtatatctacttctgttctggtagcttttcaatttgtttgcacttctgttgttctttcaatcaagaccttattgttgatattcaggcttttccttttccctgttccctttccatatcagttattatctggtcataatgtttctttctaattgcag
| |||||||| |||| |||||| |||||||| || |||||||||||||| ||| ||||||||||||| ||  | |||||  | || ||||| |||||  |     ||||||  || || ||  |  | || ||  || |   ||  | |   |    |||   || | | |  | | | ||   |  ||   ||||  ||||| |   |   ||  ||||   | ||                    
TTATGCATGAATTGCGCCTCATTCACACTGATTTAAAGCCTGAGAACATTCTTCTTGTTTCTCCAGAGTACATTAAAGTGCCCGATTACAAAgtatactt-----tgttcttctacctatttgaccttttagcctttttaacgtcttcttttt----acccggtt-tagctgattatgattcaacaattttatgttatctttctaatccttctacaatctctgc-tag-------------------

upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G063792_T04 (Zea mays), 5'ss of exon 7
TCATGCATGATTTGCACCTCATCCACACTGACTTGAAGCCTGAGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAGgtatatctacttctgttctggtagcttttcaatttgtttgcacttctgttgttctttcaatcaagaccttattgttgatattcaggcttttccttttccctgttccctttccatatcagttattatctggtcataatgtttctttctaatt--gcag
| |||||||| |||| |||||| |||||||| || |||||||||||||| ||  |||||||||| || ||  | |||||  | || ||||| ||||||||  |||| || |        || ||||    | |                    |||||  |   |  || ||| |    | ||| |||    |||     |  |         |  || ||||  | ||  |  ||| | |||   |||
TTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAAgtatatcttgttcttttata-------tttaattcacctac-------------------ccaagatttaccttgtgctatgc---ttgttcttttattgtgtattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccag

upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G063792_T03 (Zea mays), 5'ss of exon 4
--------TCATGCATGATTTGCACCTCATCCACACTGACTTGAAGCCTGAGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAGgtatatctacttctgttctggtagcttttcaatttgtttgcacttctgttgttctttcaatcaagaccttattgttgatattcaggcttttccttttccctgttccctttccatatcagttattatctggtcataatgtttctttctaatt--gcag
        | |||||||| |||| |||||| |||||||| || |||||||||||||| ||  |||||||||| || ||  | |||||  | || ||||| ||||||||  |||| || |        || ||||    | |                    |||||  |   |  || ||| |    | ||| |||    |||     |  |         |  || ||||  | ||  |  ||| | |||   |||
TGTTGCAGTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAAgtatatcttgttcttttata-------tttaattcacctac-------------------ccaagatttaccttgtgctatgc---ttgttcttttattgtgtattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccag

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|110698778|gb|EE076668.1|EE076668
EST:     AGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAG                         GTTACCACACGGTCACCAAAAGATGGAATATGTTATAAGAGGTTGCCAAGA
genomic: AGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAGgtatatctac ... ctaattgcagGTTACCACACGGTCACCAAAAGATGGAATATGTTATAAGAAGTTGCCAAGA
EST: gi|110712429|gb|EE090038.1|EE090038
EST:     AGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAAACTACAAG                         GTTACCACACCGTCCAC-AAAAGATGGGATATGTTATAA
genomic: AGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAGgtatatctac ... ctaattgcagGTTACCACACGGTC-ACCAAAAGATGGAATATGTTATAA