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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgaatcatcatgtacaccgtaaggctgtgtgcaagttttagtatttttcaaccagccatcttaaacacttggttttgattttgttcacccaactcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTAAAGGACGATTTTCAGTGACATCAGAAAATTTAGATCTGGTGAAG

Basic information

species Glycine max
transcript GLYMA20G35970.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35970.2 (Glycine max), 3'ss of exon 10
lower sequence: AT4G10730.1 (Arabidopsis thaliana), 3'ss of exon 13
gtatttgaatcatcatgtacaccgtaaggctgtgtgcaagttttagtatttttcaaccagccatcttaaacacttggttttgattttgttcacccaactcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTAAAGGACGATTTTCAGTGACATCAGAAAATTTAGATCTGGTGAAG
         | |  |  ||||   |    ||   ||||    |||||| ||| ||      | |||    |  |||  || |    || |   | | ||  | | ||||||  | |||||  | ||||| ||||| ||||||||| | || ||||| |||||| |||||||||| ||||||||||| || ||||| |  | |
--------gtgaggaaatacattatcgatcttcatgcag--cttagtaattt-cagttg--cttctagtgcggttgacttag--cgtggttgtctatcttgtac-agGATTTCGTGATTCTATAGATGACAAGTCGAAGGCTAATGTGGTTCAAATCAAAGGAAGATTTTCAGTAACATCAGAAAACTTGGATCTTGCAAGG

upper sequence: GLYMA20G35970.2 (Glycine max), 3'ss of exon 10
lower sequence: AT4G24100.1 (Arabidopsis thaliana), 3'ss of exon 12
gtatttgaatcatcatgt-acaccgtaaggctgtgtgcaagttttagtatttttcaaccagccatcttaaacacttggttttgattttgttcacccaactcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTAAAGGACGATTTTCAGTGACATCAGAAAATTTAGATCTGGTGAAG
         | | || || | |  |  || ||  || ||    |||||  ||||  |       ||||  |     | |   | |||||| ||      | |   |||||||| | |||||  ||||||||||||| ||||||||||| || ||    ||||||||||||||||| ||||||| |||| ||||||| | ||||
--------gtgagcaagtgatataggcagtcttcgtccag--cttagtggtttt--attgcttctcttgcagttgagttaaaggttttgtccat-----ttcgaatagGATTCCGTGATTCTCTGGATGATAAGTCAAAGGCTAATCTGGTTCAG---AAAGGACGATTTTCAGTAACATCAGGAAATGTAGATCTTGCGAAG
















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|193382901|gb|FK347750.1|FK347750
EST:     AACCGAGCTTACAGCAAATAGTTTATCAGCTCCAATCAAATCTTCTGGAG                         GATTCAGAGATTCCTTGGATGATAAGTCTAAGG
genomic: AACCGAGCTT-CAGCAAATAGTTTATCAGCTCCAATCAAATCTTCTGGAGgtatttgaat ... ctcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGG
EST: gi|208109628|gb|GD905302.1|GD905302
EST:     AAACCGAGCTTCAGCAAATAGTTTATCAGCTCCAATCAAATCTTCTGGAG                         GATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA
genomic: AAACCGAGCTTCAGCAAATAGTTTATCAGCTCCAATCAAATCTTCTGGAGgtatttgaat ... ctcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA
EST: gi|7693018|gb|AW761117.1|AW761117
EST:     CCAATCTAATCTTCTGGAG                         GATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA
genomic: CCAATCAAATCTTCTGGAGgtatttgaat ... ctcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA
EST: gi|7926554|gb|AW832580.1|AW832580
EST:     AAACCGAGCTTCAGCAAATAGTTTATCAGCTCCAATCAAATCTTCTGGAG                         GATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA
genomic: AAACCGAGCTTCAGCAAATAGTTTATCAGCTCCAATCAAATCTTCTGGAGgtatttgaat ... ctcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA
EST: gi|193412366|gb|FK381293.1|FK381293
EST:     AAACCGAGCTTCAGCAAATAGTTTATCAGCCCCAATCAAATCTTCTGGAG                         GATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA
genomic: AAACCGAGCTTCAGCAAATAGTTTATCAGCTCCAATCAAATCTTCTGGAGgtatttgaat ... ctcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA
EST: gi|193621788|gb|FK568590.1|FK568590
EST:     AAACCGAGCTTCAGCAAATAGTTTATCAGCCCCAATCAAATCTTCTGGAG                         GATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA
genomic: AAACCGAGCTTCAGCAAATAGTTTATCAGCTCCAATCAAATCTTCTGGAGgtatttgaat ... ctcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaccagccatcttaaacacttggttttgattttgttcacccaactcctgctagGATTCAGAGATTCCTTGGATGATAAGTCTAAGGCTAATCTAGTGCAAATTAAAGGACGATTTTCAGTGACATCAGAAAATTTAGATCTGGTGAAG
                         ttttgat  putative branch site (score: 4)
                                             ctcctgct  putative PPT
                         ttttgatttt  TA-rich tract