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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttctatcccacttatgctttggattttcccttctcattttactccgaagaaattgaaagtgtttgtagaataactttaactctctaagtattgattgcagGTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCTGCTTCCTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA

Basic information

species Glycine max
transcript GLYMA09G35240.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 7
gtactttctatcccacttatgctttggattttcccttctcattttactccgaagaaattgaaagtgtttgtagaataactttaactctctaagtattgattgcagGTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCTGCTTCCTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
                   || |||  |||| |  || || | |||   |  |     |   |   ||| |    ||  ||    |   | | |  |  || ||| | || || |||||| |||| ||||||||||||| |||||| || ||||| ||||| ||||| | ||||||| | | |||  | ||||||||  |  | |
------------------gtgattttaatttcctgttttcttcttatatcatactccgtaccatgttttctgtggtagattatgttgattcatt-ctactttcagATAATATGCTGGGTTTTGGGAGAATATGGAACAGCAGATGGGAAATATTCAGCTTCATATATTATTGGGAAGCTGTATGATGTGGCAGAGGCCCACCCAA

upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 7
gtactttctatcccacttatgctttggattttcccttctcattttactccgaagaaattgaaagtgtttgtagaata-actttaactctctaagtattgattgcagGTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCTGCTTCCTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
                         | | ||    | ||  |  ||        | ||| | ||| |  | | | || |  || | ||  |   | ||     ||| | || || |||||| |||||||||||||||||| ||||||||| ||||| ||||| ||||| | ||||||||| |||||  | ||||||||  |   ||
-------------------------gtagttgttttccttgtcctatctattccagatt-atagtttcgggatattatatgttgattcatttcatgtt-----cagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA

upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G031352_T01 (Zea mays), 3'ss of exon 6
gtactttctatcccacttatgctttggattttcccttctcattttactccgaagaaattgaaagtgtttgtagaataactttaactctctaagtattgattgcagGTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCTGCTTCCTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
                   |  ||   ||||| | |   | || || ||| ||  |        |  || | | ||   || |  |   | | |||    | ||| | || || |||||  |||||||||||||||||| |||||||||  |||| ||||| ||||| | |||||| || |||||  | ||||||||  |   ||
------------------gtagtt---atttttcttgtcctttctattccaaacta--------tagttttgggatgttttaagttgattcattatg---ttcagATAATATGCTGGGTGTTGGGGGAATATGGAACAGCAGATGGAAAACATTCGGCTTCTTATATTATTGGGAAATTGTGTGATGTGGCAGAGGCCCACCTCA

upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 7
gtactttctatcccacttatgctttggattttcccttctcattttactccgaagaa--attga--aagtgtttgtagaataactttaactctctaagtattgattgcagGTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCTGCTTCCTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
|||| |||| | | |  |   |  |   |||  | ||    || | |    | | |  ||| |  ||    ||||  | || |||  | |   |   | |    | ||||| || ||||||||| |||| || |||||||| |  | |||||||||||||||||||||||||| ||| |||||||||||  | ||||||||  |||| |
gtacattctgttctatctggacactatttttgtcatttgttttctgcatgtaggcattattcacaaaactcttgtttattatctt--agttgttggttctgatctacagGTTATTTGTTGGGTTTTGGGTGAGTATGGAACTGCGGGTGGAAAGTATTCTGCTTCCTATATCACTGGAAAGTTATGTGATGTGGCAGAGGCCCATTCAA

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|7232868|gb|AW568220.1|AW568220
EST:     CATATTTGCGCATTATAGGAGAGCCAAAGCTTCCATCAGTGTTTCTTCAA                         GTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCT
genomic: CATATTTGCGCATTATAGGAGAGCCAAAGCTTCCATCAGTGTTTCTTCAAgtactttcta ... ttgattgcagGTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCT
EST: gi|254346448|gb|GR856170.1|GR856170
EST:     CATATTTGCGCATTATAGGAGAGCCAAAGCTTCCATCAGTGTTTCTTCAA                         GTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCT
genomic: CATATTTGCGCATTATAGGAGAGCCAAAGCTTCCATCAGTGTTTCTTCAAgtactttcta ... ttgattgcagGTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagaaattgaaagtgtttgtagaataactttaactctctaagtattgattgcagGTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCTGCTTCCTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
                    tagaataactttaa  TA-rich tract