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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgactaagtctctacatgttctcttcaagtgactgatacatttagatgattgctttacatgttattccagGCATTTTTTCTTCACAGCAATGCTGTTCGTATATGGCCGTATTCTCAGTCAACAGCTTGTGAATACTATGAGTACAGATAAATTCTTCTATAAGCTCGTG

Basic information

species Vitis vinifera
transcript Vv19s0090g01220.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 1
-------------------------gtaacgactaagtctctac-----atgttctcttcaagtgac--tgatacatttagatgattgctttacatgttat-tccagGCATTTTTTCTTCACAGCAATGCTGTTCGTATATGGCCGTATTCTCAGTCAACAGCTTGTGAATACTATGAGTACAGATAAATTCTTCTATAAGCTCGTG
                           || ||  | ||    |      |||||   || ||   |   || | ||   |||| ||   | |  |||  || |||||||||| |||||||||||||||||| ||||||||||||||||||||||||||||| |||||||||||| ||| | |||||||| |||| ||||   | |||
gtaagcattcatgtactgtaatttccaaatgatcatgtgcaaatgagaaatgtttagtttaataaatagtgtttcacaaagat-atgattctgaatgcaatgtccagGCATTATTTCTTCACAGCAATGCTATTCGTATATGGCCGTATTCTCAGTCAACAACTTGTGAATACTGTGACTTCAGATAAACTCTTGTATAGATTTGTG

upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G46440.1 (Glycine max), 3'ss of exon 3
------------------gtaacgactaagtctctacatgttctcttcaagtgactgatacat---------ttagatgattgctttacatgttat-tccagGCATTTTTTCTTCACAGCAATGCTGTTCGTATATGGCCGTATTCTCAGTCAACAGCTTGTGAATACTATGAGTACAGATAAATTCTTCTATAAGCTCGTG
                  ||||   |||| |    |  ||        |||||  | ||||||           |    ||   | || |||  || |||||||||| |||||||||||||||||| ||||||||||||||||||||||||||||| |||||||||||  ||| | ||||||||||||| ||||   | |||
gtaagtattcatgctactgtaatttctaaatgatcatgtgcatatgagaagtgtttaatacatagtgtttcacaaagatatgattctaaatgcaatgtccagGCATTATTTCTTCACAGCAATGCTATTCGTATATGGCCGTATTCTCAGTCAACAACTTGTGAATACAGTGACTTCAGATAAATTCTTGTATAGATTTGTG
















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|110424073|gb|EC990426.1|EC990426
EST:     AGAAGAGCACATGAAGATAAGCATCTTCCAGGATTCAGGCTCTTGAATTG                         GCATTTTTTCTTCACAGCAATGCTGTTCGTATATGGCCGTATTCTCAGTCA
genomic: AGAAGAGCACATGAAGATAAGCATCTTCCAGGATTCAGGCTCTTGAATTGgtaacgacta ... gttattccagGCATTTTTTCTTCACAGCAATGCTGTTCGTATATGGCCGTATTCTCAGTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttctcttcaagtgactgatacatttagatgattgctttacatgttattccagGCATTTTTTCTTCACAGCAATGCTGTTCGTATATGGCCGTATTCTCAGTCAACAGCTTGTGAATACTATGAGTACAGATAAATTCTTCTATAAGCTCGTG
               gactgat  putative branch site (score: 3)
                                              ttattcc  putative PPT
                    atacattta  TA-rich tract