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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtatatgttctattctaattcatgacaatcactatcaccctatgtatttactaattttaattttgcttactttttactcaccatagGTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAGTTCCCTCGGATTTTTGATCCATGGGGTGGTTACAGCATCATAGGTTTTG

Basic information

species Glycine max
transcript GLYMA01G42940.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G42940.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G096343_T01 (Zea mays), 3'ss of exon 10
----------------gttagtatatgttctattc--taattcatgacaatc-actatcaccctatgt-atttactaat--tttaattttgcttactttttactcaccatagGTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAGTTCCCTCGGATTTTTGATCCATGGGGTGGTTACAGCATCATAGGTTTTG
                  ||  || | | | ||||  |   |  |    ||| | | ||  | | | | |||| |||    | ||  | ||| |    | | ||  |   |||| || || || ||    | ||  || |||||  | |||||| |  | ||| | |||||||| ||||||||||||||||| |||||||||||||| ||||
gtatgtatgaatgagtactatgatgtttgcaattcgctgtctgctagtcatctagtttcttcttctatgatttgctagatatctagctatgcatgtggtctgcttgc---agGTTGCACGTGGTGACAAGACTGATGAGGATGGTGTACCCATGCTGTTAAAGATTCCTCGGATGTTTGATCCATGGGGTGGATACAGCATCATAGGCTTTG

upper sequence: GLYMA01G42940.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 8
gttagtatatgttctattctaattcatgacaatcactatcaccctatgtatttactaattttaattttgcttactttttactcaccatagGTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAGTTCCCTCGGATTTTTGATCCATGGGGTGGTTACAGCATCATAGGTTTTG
    |||   ||   |       |  ||  | |   |   | |||   | ||| ||  || ||   |   ||  ||| | ||    |||||| || || |||||    |  |  || |||||  | |||||| | || ||  |||| || || ||||||||||||||||| ||||||||||| || ||||
----gtaagcgtgtgaaaggggattctgctatttggtggtatcctgaat-tttgctggttatagcatg--ttggtttcttctgcaaatagGTTGCGCGTGGCGACAAGACCGACGAGGATGGTGTGCCCATGCTGCTAAAAATCCCGCGAATGTTTGATCCATGGGGTGGATACAGCATCATTGGCTTTG

upper sequence: GLYMA01G42940.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S124_16V6.1 (Physcomitrella patens), 3'ss of exon 10
------------------------------------------------------------------------------------gttagtatatgttctattct-----aattcatgacaatcactatcaccctatgtatt------tactaattttaattt-tgcttactt--tttactcaccatagGTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAGTTCCCTCGGATTTTTGATCCATGGGGTGGTTACAGCATCATAGGTTTTG
                                                                                     ||   | ||||  | || |     | |||| |   |  |     | | |  ||||        || | |  | |  | ||   | |    ||       | |||| || || || |||   |     | ||| || ||||| ||| | || ||  | || ||  ||||||||||||||||||| ||||| ||||| |||||||
gtatgttcatcaatctggcttttcctatttaagacgcgcgtttttgaaattgtttcgacttctaggttgtgaactattgagtgctttgacaaatgtcgtctttttcatcacttcaagctgacgatcggtagcttgggtatcacaatacacaagtgctgagatatgacgattgaacttttctgggacagGTTGCTCGGGGAGATAAGACCAATGGAGAGGGTATTCCTATGCTTCTTAAAGTTCCACGTCTTTTTGATCCATGGGGTGGCTACAGTATCATTGGTTTTG

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|18039168|gb|BM307462.1|BM307462
EST:     GTTTTTCAAGGAAAGCGTCATGATTGTG                         GTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAG
genomic: GTTTTTCAAGGAAAGCGTCATGATTGTGgttagtatat ... ctcaccatagGTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAG
EST: gi|151395947|gb|EV265824.1|EV265824
EST:     TTTGGGTATTTGTCTCAAAGAAGTTTTTCAAGGAAAGCGTCATGATTGTG                         GTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAG
genomic: TTTGGGTATTTGTCTCAAAGAAGTTTTTCAAGGAAAGCGTCATGATTGTGgttagtatat ... ctcaccatagGTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAG
EST: gi|151407819|gb|EV277634.1|EV277634
EST:     TTTGGGTATTTGTCTCAAAGAAGTTTTTCAAGGAAAGCGTCATGATTGTG                         GTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAG
genomic: TTTGGGTATTTGTCTCAAAGAAGTTTTTCAAGGAAAGCGTCATGATTGTGgttagtatat ... ctcaccatagGTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatcaccctatgtatttactaattttaattttgcttactttttactcaccatagGTGGCCCGAGGCGATCGAAGTGGAGAAGATGGAATTCCCATGTTACTGAAGTTCCCTCGGATTTTTGATCCATGGGGTGGTTACAGCATCATAGGTTTTG
                                           tactcac  putative branch site (score: 1)
                                  cttactttttactc  CT-rich tract
         tatgtatttactaatt  TA-rich tract