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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttacagtctatagtatagtttttgtttcacttgcatggtcaccgtgctatcattttgtatgtgtcattgagtagctcatggttgtgagaggacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGGCAAAATTGTATTGGGTGTCTTGGCTTGTCCAAATCTTCCACTGGCATCC

Basic information

species Glycine max
transcript GLYMA05G26250.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G26250.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G152757_T04 (Zea mays), 3'ss of exon 4
------ttacagtctatagtatagtttttgtttcacttgcatggtcaccgtgctatcattttgtatgtgtcattgagtagctcatggttgtgagaggacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGGCAAAATTGTATTGGGTGTCTTGGCTTGTCCAAATCTTCCACTGGCATCC
      ||  | |  |||| ||||   |     ||||    ||    || |||||  | ||   ||   | ||        | ||  || |||   || || |  | ||  | || || || |||||||| || ||||| ||| || |  ||||||| ||| |||| |||||||| ||||||||||||||||||||| || |||| 
tcaagattttaattaatag-atagccgt-acaccactgatttgccagccttgctaataattgtcataccttatctgaatttttatt-ttatgacctga-atca--gTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGGTAAAGTTGTTTTGGGTGTATTGGCTTGTCCAAATCTTCCATTGTCATCA

upper sequence: GLYMA05G26250.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0044g01480.t01 (Vitis vinifera), 3'ss of exon 4
ttacagtctatagtatagtttttgtttcacttgcatggtcaccgtgctatcattttgtatgtgtcattgagtagctcatggttgtgagaggacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGGCAAAATTGTATTGGGTGTCTTGGCTTGTCCAAATCTTCCACTGGCATCC
||  ||||| | |   | |  |||  |   ||  || |       |   | |           | ||  | |||||  || |||||||     | | ||| ||| |||||||||| || ||||| |||||||||||  || || ||||||| ||| | || ||||||||| | |||||||||||||||||  ||||||||
tttgagtcttttgaccactaattgagtgctttatattgattttaagtacttaccagcccacaatgatgaaatagcttgtgtttgtgagtttttaatgtagTTTTCTAAGAGGAGACCAGTATGCAATAGCATTAGCACTGCTAGATGAAGGAAAAGTGGTGTTGGGTGTCCTCGCTTGTCCAAATCTTCCCTTGGCATCC

upper sequence: GLYMA05G26250.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S83_223V6.2 (Physcomitrella patens), 3'ss of exon 4
-ttacagtctatagtatagtttttgt--ttcacttgcatggtcaccgtgctatcattttgtatgtgtcattgagtagctcatggtt-gtgagaggacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGGCAAAATTGTATTGGGTGTCTTGGCTTGTCCAAATCTTCCACTGGCATCC
 | | |    ||  |    |||  |    ||  ||| |   || |     |||  |     | ||||   |   ||  | ||| ||  ||     |  || ||||||||| ||||||||||||||||| |||||  | |   |  |  |  | || ||  ||||    || || || | ||| || ||||| ||  |||  |||
gtgagaaaacatcttgacctttcagagactcctttgtagcttctcttcattattttagctgaagtgtgtgtcgata-ttaatgatttatggttccatgttttagGTTTGTGAGAGGAGATCAATATGCCATAGCTCTTGGCCTACTGGACAATGGAAAGGTTGTGGCTGGCGTTTTAGGTTGCCCTAATCTGCCGATGGGGTCC

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|151398725|gb|EV268596.1|EV268596
EST:     GGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGG                         GTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGG
genomic: GGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGGgtgagtatct ... gacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGG
EST: gi|15813517|gb|BI785792.1|BI785792
EST:     GGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGG                         GTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGG
genomic: GGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGGgtgagtatct ... gacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGG
EST: gi|192294187|gb|FG986276.1|FG986276
EST:     GGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGG                         GTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGG
genomic: GGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGGgtgagtatct ... gacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGG
EST: gi|192330285|gb|FK020570.1|FK020570
EST:     GGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGG                         GTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGG
genomic: GGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGGgtgagtatct ... gacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctatcattttgtatgtgtcattgagtagctcatggttgtgagaggacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGGCAAAATTGTATTGGGTGTCTTGGCTTGTCCAAATCTTCCACTGGCATCC
      attttgtat  TA-rich tract