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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttatatcccacttatgctttggattttaccttctcgttttactctgaagaaattaaatgtgtttgttagaataactttaactctttaagtactgattgcaatttgcagGTCATCTGTTGGGTTCTGGGGGAATACGGAACAGCAGATGGAAAGTATTCTGCTTCTTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA

Basic information

species Glycine max
transcript GLYMA01G35650.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 7
gtactttatatcccacttatgctttggattttaccttctcgttttactctgaagaaattaaatgtgtttgttagaataactttaactctttaagt--actgattgcaatttgcagGTCATCTGTTGGGTTCTGGGGGAATACGGAACAGCAGATGGAAAGTATTCTGCTTCTTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
                          |||||||  |||  |||||  ||| |    || | |  |   |   |   |  || |      ||| ||  | | |||  | ||| ||| | || || |||||| |||| ||||| |||||||||||||| || ||||| ||||| ||||| | ||||||| | | |||  | ||||||||  |  | |
------------------------gtgattttaatttcctgttttcttcttat---atcatac-tccgtaccatgttttctgtggtagattatgttgattcattctacttt-cagATAATATGCTGGGTTTTGGGAGAATATGGAACAGCAGATGGGAAATATTCAGCTTCATATATTATTGGGAAGCTGTATGATGTGGCAGAGGCCCACCCAA

upper sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 7
gtactttatatcccacttatgctttggattttaccttctcgttttactctgaagaaattaaatgtgtttgttagaataactttaactctttaagtactgattgcaatttgcagGTCATCTGTTGGGTTCTGGGGGAATACGGAACAGCAGATGGAAAGTATTCTGCTTCTTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
                         | | ||    | || ||  ||        | |||| |   ||||    | |||   |||  | || |     | ||| ||  || ||| | || || |||||| |||||||||| ||||||||||||||||| ||||| ||||||||||| | ||||||||| |||||  | ||||||||  |   ||
-------------------------gtagttgttttccttgtcctatctattccagattata---gttt--cgggata---ttatatgttga----ttcatttcatgtt-cagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA

upper sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G031352_T01 (Zea mays), 3'ss of exon 6
gtactttatatcccacttatgctttggattttaccttctcgttttactctgaagaaattaaatgtgtttgttagaataactttaactctttaagtactgatt-gcaatttgcagGTCATCTGTTGGGTTCTGGGGGAATACGGAACAGCAGATGGAAAGTATTCTGCTTCTTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
                   |  ||   ||||| | |   | || || ||     ||| || |   ||||  | | ||           |||||||  |||||    || | ||| | || || |||||  |||||||||| |||||||||||||||||  |||| ||||||||||| | |||||| || |||||  | ||||||||  |   ||
------------------gtagtt---atttttcttgtcctttctattcc----aaactata---gttt--tgggatg---------ttttaagt--tgattcattatgttcagATAATATGCTGGGTGTTGGGGGAATATGGAACAGCAGATGGAAAACATTCGGCTTCTTATATTATTGGGAAATTGTGTGATGTGGCAGAGGCCCACCTCA

upper sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 7
gtactttatatcccacttatgctttggattttaccttctcgttttactctgaagaaattaaatgtgtttgttagaataactttaactctttaagt-actgattgcaatttgcagGTCATCTGTTGGGTTCTGGGGGAATACGGAACAGCAGATGGAAAGTATTCTGCTTCTTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
|||| || | | | |  |   |  |   ||||  | | |  |||     || ||  ||||      ||    | | |    || | | | | |||   || ||   || | ||||| || ||||||||| |||| || || ||||| || | |||||||||||||||||| ||||||| ||| |||||||||||  | ||||||||  |||| |
gtacattctgttctatctggacactat-ttttgtcatttgttttctgcatgtaggcatta------ttcacaaaactcttgtttattatcttagttgttggttctgatctacagGTTATTTGTTGGGTTTTGGGTGAGTATGGAACTGCGGGTGGAAAGTATTCTGCTTCCTATATCACTGGAAAGTTATGTGATGTGGCAGAGGCCCATTCAA

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|208312667|gb|GE112129.1|GE112129
EST:     CATATTTGCGCATTATTGGAGAGCCAAAGCTTCCATCAGTGTTTCTTCAA                         GTCATCTGTTGGGTTCTGGGGGAATACGGAACAGCAGATGGAAAGTATTCT
genomic: CATATTTGCGCATTATTGGAGAGCCAAAGCTTCCATCAGTGTTTCTTCAAgtactttata ... caatttgcagGTCATCTGTTGGGTTCTGGGGGAATACGGAACAGCAGATGGAAAGTATTCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaatgtgtttgttagaataactttaactctttaagtactgattgcaatttgcagGTCATCTGTTGGGTTCTGGGGGAATACGGAACAGCAGATGGAAAGTATTCTGCTTCTTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA
                                    tactgat  putative branch site (score: 2)
            ttagaataactttaa  TA-rich tract