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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctttgagggtcgagttaggctcatttttttttcatttgtaaccattttgaagttgggtaacctgaaaaagttctttatttgctgaatccatcctacagGTGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCTGGCTTAGCAGTTGCACTGA

Basic information

species Glycine max
transcript GLYMA02G38160.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 9
lower sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 9
tgctttgagggtcgagttaggctcatttttttttcatttgtaaccattt---tgaagttgggtaacctgaaaaagttctttatttgctgaatccatcctacagGTGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCTGGCTTAGCAGTTGCACTGA
          ||  | ||    || ||| | | |  | | | |     |   | |  |   || ||     ||  || | |  ||  | | |  | |  | ||||  ||||||||||||| |||||||| ||||| ||||||||||||||||| |||||||||||||| |||||||||||  | ||  |||||||||| ||||
----------gtgaattt---ttcgtttctatattgtatatgaatgagtaaataacttccagttactgactaattttatgtcgtttgtaactttacctgatagGTCATGTATGACTATGAGGACAGAATTAATCAAGCTGTTTTTCCTGGACTGCAAGGTGGTCCACATAATCACACTATAACGGGTCTAGCAGTTGCTCTGA

upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 9
tgctttgagggtcgagttaggctcatttttttttcatttgtaaccattttgaagttgggtaacctgaaaaagttctttatttgctgaat-ccatcctacagGTGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCTGGCTTAGCAGTTGCACTGA
|  ||      | |  |  || |  |||   |||     | ||  |||   ||||    || |  | | |  || || | | | ||||| ||||||||||||||||||||||||||||||||| ||| ||||||||||| |||||||||||||||||||| ||||||||||| |||||||||||||||||||||||| |||
tttttccccaattggttatggtttctttcagttttgaaagcaaa-attcataagtgaattatctggcacacatttttcaatggttgaattccatcctacagGTGTTGTATGACTATGAAGACAAAATCAATCAGGCTGTCTTTCCTGGACTTCAAGGTGGACCACACAATCATACTATTTCTGGCTTAGCAGTTGCATTGA

upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 9
lower sequence: PP1S79_54V6.1 (Physcomitrella patens), 3'ss of exon 9
------tgctttgagggtcgagttaggctcatttttttttcatttgtaaccattttgaagttgggtaacctgaaaaagttctttatttgctgaatccatcctacagGTGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCTGGCTTAGCAGTTGCACTGA
        ||   | |   |  |  ||   ||  |  | ||   | |         || ||||| ||   |  |   |    ||  |     |  |     | ||| | || || ||||||||||||| ||| |||   ||||||||||| ||||| ||||| ||||| ||||| ||||| ||| | ||  | || |||||  |||
tgtcttcactccaacgaaagcataggggcgatgctggtctcgcgtatg------cggaggttggttacatttcagctgaatgtttctgatccatcctgctgtgcagATTTTCTACGACTATGAAGACAAAATTAATGCTGCTGTTTTTCCAGGACTACAAGGGGGTCCTCACAACCACACCATTGCAGGACTTGCTGTTGCCTTGA

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|5819930|gb|AI988197.1|AI988197
EST:     GATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGGAAGGT-                         GTGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACT
genomic: GATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGG-AAGGAAgtgagtttta ... catcctacagGTGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACT
EST: gi|16279502|gb|BI943469.1|BI943469
EST:     TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGG------                         -TGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACTT
genomic: TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGAAGGAAgtgagtttta ... catcctacagGTGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttgaagttgggtaacctgaaaaagttctttatttgctgaatccatcctacagGTGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCTGGCTTAGCAGTTGCACTGA
           gggtaac  putative branch site (score: 3)
                                           tccatcct  putative PPT
                     aaaaagttctttattt  TA-rich tract