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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagctttccttcattcttcttttcatgtcttttacctgctttttttcccccttatgttgatggttttgtgtgtgttgatttcacagTGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTGCTTTGGGGTCTTCTGCACCACATATGATCTCAAGGCG

Basic information

species Vitis vinifera
transcript Vv13s0019g05250.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g05250.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G129513_T01 (Zea mays), 3'ss of exon 1
----------gtgagctttccttcat-tcttcttttcatgtcttttacctgctttttttcc--cccttatgttgatggt-----tttgtgtgtgttgatt----tcacagTGAAGCTCCGGTGGCTGTGCAGGC-----TCAAGATCAAAAGATCAAGCCCG-------AGTGCTTTGGGGTCTTCTGCACCACATATGATCTCAAGGCG
            |   ||    ||    || |    || |   |  || ||  |   | ||  |   || | ||| | |        || |  || |||      | |||  | || | ||  |  |||  | |     ||  ||   |     |     ||       ||||||| ||||||||||||||||| || || |||||||||
gtgagtagcaccgtatttcagctcgcgcctaccccccacgatgtggacgtgaatgcgtgccagcagctaggctgacgctgaccagccgtatacgtcgatgagaaccccagGCAGGCGCAGGATGGCGTGGCGACGGCGGTCGCGACGGAGGCGCCGGCGTCGCGGAAGGAGTGCTTCGGGGTCTTCTGCACCACCTACGACCTCAAGGCG
















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|110728729|gb|EE104550.1|EE104550
EST:     CCGCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAA                         TGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
genomic: CCGCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAAgtgagctttc ... gatttcacagTGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
EST: gi|351028003|gb|FQ425904.1|FQ425904
EST:     CCGCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAA                         TGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
genomic: CCGCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAAgtgagctttc ... gatttcacagTGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
EST: gi|32249928|gb|CD715747.1|CD715747
EST:     GCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAA                         TGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
genomic: GCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAAgtgagctttc ... gatttcacagTGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
EST: gi|110382693|gb|EC947010.1|EC947010
EST:     CCGCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAA                         TGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
genomic: CCGCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAAgtgagctttc ... gatttcacagTGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
EST: gi|110389983|gb|EC954863.1|EC954863
EST:     CCGCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAA                         TGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
genomic: CCGCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAAgtgagctttc ... gatttcacagTGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
EST: gi|27578522|gb|CB001217.1|CB001217
EST:     GCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAA                         TGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG
genomic: GCTGCCTCGAACCCGGAATGCCAGAATCTCTTGTTCCGTCGCCTCCAAgtgagctttc ... gatttcacagTGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacctgctttttttcccccttatgttgatggttttgtgtgtgttgatttcacagTGAAGCTCCGGTGGCTGTGCAGGCTCAAGATCAAAAGATCAAGCCCGAGTGCTTTGGGGTCTTCTGCACCACATATGATCTCAAGGCG
                                         tgttgat  putative branch site (score: 4)
        ttttttt  TA-rich tract