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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctttagttgcaactacattattttctgtccaccattcatttttgtgcattttagatcttgtatagttgaattggttcttcttctttctgatcttcacttgttttaattgtgaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATTGGTGTAGACAGATCTTGAGCGGACTTCTCTATCTTCACAGTCACGACCCGCCT

Basic information

species Glycine max
transcript GLYMA20G37180.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G37180.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagttctttagttgcaactacattattttctgtccaccattcatttttgtgcattttagatcttgtatagttgaattggttcttcttctttctgatcttcacttgttttaattgtgaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATTGGTGTAGACAGATCTTGAGCGGACTTCTCTATCTTCACAGTCACGACCCGCCT
                                     |  ||||  || |   |||  |     || | | ||||    | ||    || | | | |   | ||||  ||||  || || | || ||||| || |  || |||||||| ||||| |||||  ||||||||||||| ||||| |||||||| ||  | |  ||||||||||| || || || |||
-----------------------------------gtaagattctcttgtaaacatact----tttctgtcgttg----gttttagtttatctttaacgataacttcattta--tg-gatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT

upper sequence: GLYMA20G37180.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G28080.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagttctttagttgcaactacattattttctgtccaccattcatttttgtgcattttagatcttgtatagttgaattggttcttcttctttctgatcttcacttgttttaattgtgaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATTGGTGTAGACAGATCTTGAGCGGACTTCTCTATCTTCACAGTCACGACCCGCCT
                                            |   || |    | |  ||||  || |||  | ||   |      ||| || ||  |   || || ||  | | |   |||||||||||||| || |||||||| ||||| ||||| || ||| |||||||||||||||| || || ||| |   ||||||||| |  || ||||| |||
------------------------------------------gtaagcttat---ctctctatctcata-agtgaagttctcttgataacttactcataat--gtttttatatctttcatgcagGTATAGGCTAAAACATAAGAGAGTGAACATAAGAGCGGTAAAGAATTGGTGTAGACAGATTTTAAGAGGATTAAACTATCTTCATACACATGACCCTCCT

upper sequence: GLYMA20G37180.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 3
-----------gtaagttctttagttgcaactacattattttctgtccaccattcatttttgtgcatttta-gatcttgtatagttga--attggttcttcttctttctg--atcttcacttgttttaattgtgaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATTGGTGTAGACAGATCTTGAGCGGACTTCTCTATCTTCACAGTCACGACCCGCCT
             ||||||  |  ||   | | | || |||| | |      |  |||| | |  |||||  ||||| |    |||||  ||| ||     |||| |  |  || |||| ||   || ||| ||   ||||||||||||||| |||| |||||||||||||||||| |||||||||||||| ||||||||||| || || || ||||| || ||||  ||  | || |||
gtaagtatcatacaagttccatgattatgaatgcctttttttttttttgt--tcaatttctcttgattttctgatctgggcatgttgagaatttgtgtaaattctgtgagcaattttcattttcatttattttgtggtagGTATAGGCTAAAACACAGGAGAGTTAACATCAGAGCTGTGAAGCATTGGTGCAGACAGATCTTAAGGGGGCTGCTCTACCTCCACAACCATAAACCCCCT

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|193694600|gb|FK627294.1|FK627294
EST:     GGAACATCAACTTCGTGACTGAAATGTTCACATCCGGTAACACTTAGGCA                         GTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATT
genomic: GGAACATCAACTTCGTGACTGAAATGTTCACATCCGGTA-CACTTAGGCAgtaagttctt ... tgtgaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagttgaattggttcttcttctttctgatcttcacttgttttaattgtgaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATTGGTGTAGACAGATCTTGAGCGGACTTCTCTATCTTCACAGTCACGACCCGCCT
                                      ttttaat  putative branch site (score: 3)
                                      ttttaattgtgaaata  TA-rich tract