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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatatgaggttttatttatgacaaatatcaaaattttattcctttttgctatgcatcattgtatccaatcctgaaattaccttcttttctgatggtttagGGGGCCATGATGATGCAAAGTTGTCAATTCCTGCTACTGTTGTTCTTCGGTATATGTTTACTCCTGCTGAAATGAGG

Basic information

species Vitis vinifera
transcript Vv00s0220g00010.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0220g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G31450.1 (Glycine max), 3'ss of exon 11
tatatgaggttttatttatgacaaatat-caaaattttattcctttttgctatgcatcattgtatccaatcctgaaattaccttcttttctgatggtttagGGGGCCATGATGATGCAAAGTTGTCAATTCCTGCTACTGTTGTTCTTCGGTATATGTTTACTCCTGCTGAAATGAGG
  |||   | || | ||  ||    ||     | ||| | |   ||||  | |  | ||| | ||||      | |||    ||||  |   |||| | ||| || | ||||||||||||  | |||||||| || |||||| | ||||| ||||||||| |||| ||||||||||||
attattttggttgacttgagatttttagattcattttcagttgattttcttgtttagcat-gcatccctgatagtaatgtgtttctcattgtatggctcagGTGGTCGTGATGATGCAAAAGTTTCAATTCCAGCAACTGTTATCCTTCGTTATATGTTTGCTCCAGCTGAAATGAGG

upper sequence: Vv00s0220g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G36110.1 (Glycine max), 3'ss of exon 10
-tatatgaggttttatttat-gacaaatatcaaaattttattcctttttgctatgcatcattgtatccaatcctgaaattaccttcttttctgatggtttagGGGGCCATGATGATGCAAAGTTGTCAATTCCTGCTACTGTTGTTCTTCGGTATATGTTTACTCCTGCTGAAATGAGG
 |   |||  |   |||| | ||   || |  | | || ||| ||| ||  | |  | ||| | ||||      |  ||  | ||||  |   |||| | ||| || |  |||||||||||  | |||||||| || |||||| | ||||| ||||||||  |||| ||||||||||||
ttggttgacttgagatttttagattcattttcagagttaatttcttgtt-ttgtttagcat-gcatccctgatagtcatgtctttctcattgtatggctcagGTGGTCGCGATGATGCAAAAGTTTCAATTCCAGCAACTGTTATCCTTCGTTATATGTTCGCTCCAGCTGAAATGAGG
















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|110384553|gb|EC948997.1|EC948997
EST:     GAGAAAGAAAAAGAAACTCAAGAGGGTTGAAGACAAGATTCTTGGTT-GG                         GGGGCCATGATGATGCAAAGTTGTCAATTCCTGCTACTGTTGTTCTTCGGT
genomic: GAGAAAGAAAAAGAAACTCAAGAGGGTTGAAGACAAGATTCTTGGTTGGGgtaggttcct ... gatggtttagGGGGCCATGATGATGCAAAGTTGTCAATTCCTGCTACTGTTGTTCTTCGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctatgcatcattgtatccaatcctgaaattaccttcttttctgatggtttagGGGGCCATGATGATGCAAAGTTGTCAATTCCTGCTACTGTTGTTCTTCGGTATATGTTTACTCCTGCTGAAATGAGG
                                         ttctgat  putative branch site (score: 3)
                               ttaccttcttttctg  CT-rich tract
                          tgaaatta  TA-rich tract