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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagaaatgactaaatgcagtcaacaataatactcaagaatttataaatgttcaatcattgttggtgtcttcttgcttttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG

Basic information

species Glycine max
transcript GLYMA07G06230.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 7
lower sequence: AT3G61700.1 (Arabidopsis thaliana), 3'ss of exon 7
tagaaatgactaaatgcagtcaacaa--taatactcaagaatttataaatgttcaatcattgttggtgtcttcttgcttttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
     | |  | ||||   ||       |  || |   |  | |  || ||| || |  || |      ||  ||  |   |      |  ||   |||||||| |||||||  | ||||||||||| || || |||||| | |||||||||||||| ||||| || || |||||||| ||| |||| ||||
---gtaagtttcaatgtcatccttctctttttatttctggctatggaattgt-cagtt-ttataaagagctgatta-tcagataaagatatgtatgttgcagATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGACATAG

upper sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 7
lower sequence: AT2G46420.1 (Arabidopsis thaliana), 3'ss of exon 7
---------------------------tagaaatgactaaatgcagtcaacaataatactcaagaatttataaatgttcaatcattgttggtgtcttcttgctt-ttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
                                 |  ||  |   | |  | || |    |    |  |  |  |||| ||    |  |   |    | |||| | | | ||   |   | |||||||||| |||| ||| | ||||||||||| ||||| || ||| |||||||||||||||| ||||| || || ||||| || ||| |||| ||||
gtaagctctttttatcaaatgccattgcgagtttagctcgaaaaactttataacatacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttt-tactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAG

upper sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 7
lower sequence: AT2G46420.2 (Arabidopsis thaliana), 3'ss of exon 7
---------------------------tagaaatgactaaatgcagtcaacaataatactcaagaatttataaatgttcaatcattgttggtgtcttcttgctt-ttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG----------
                                 |  ||  |   | |  | || |    |    |  |  |  |||| ||    |  |   |    | |||| | | | ||   |   | |||||||||| |||| ||| | ||||||||||| ||||| || ||| |||||||||||||||| ||||| || || ||||| || ||| |||| ||||          
gtaagctctttttatcaaatgccattgcgagtttagctcgaaaaactttataacatacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttt-tactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA

upper sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 7
lower sequence: AT3G61700.2 (Arabidopsis thaliana), 3'ss of exon 7
tagaaatgactaaatgcagtcaacaa--taatactcaagaatttataaatgttcaatcattgttggtgtcttcttgcttttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
     | |  | ||||   ||       |  || |   |  | |  || ||| || |  || |      ||  ||  |   |      |  ||   |||||||| |||||||  | ||||||||||| || || |||||| | |||||||||||||| ||||| || || |||||||| ||| ||||     
---gtaagtttcaatgtcatccttctctttttatttctggctatggaattgt-cagtt-ttataaagagctgatta-tcagataaagATATGTATGTTGCAGATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGA-----

upper sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
tagaaatgactaaatgcagtcaacaataatactcaagaatttataaatgttcaatc-attgttggtgtcttcttgcttttactgtct----tgagttc-tttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
      |||  |  |  |    | |  | | ||   | ||  || | | |  |||| ||| |  |   | || || ||| |   | |    |||  || |||||||||||||||||| |||||||||| || ||||| || ||| ||   |||||||||||||||||||| || ||||| || ||| |||||||||
------tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccattatgagcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG

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|17401879|gb|BM178661.1|BM178661
EST:     ATGGAATTTTAGCCTATCTGATCTAACGGCAGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGA
genomic: ATGGAATTTTAGCCTATCTGATCTAACGGCAGATTTGCCAAACTTGGGAGgtgatttctt ... ttctttgcagATCTAGGAGCTCTGGGA
EST: gi|120497096|gb|EH225263.1|EH225263
EST:     ATGGAATNTTAGCCTATCTGATCTAACGGCAGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCT
genomic: ATGGAATTTTAGCCTATCTGATCTAACGGCAGATTTGCCAAACTTGGGAGgtgatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCT
EST: gi|193604438|gb|FK555889.1|FK555889
EST:     ATGGAATTTTAGCCTATCTGATCTAACGGCAGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: ATGGAATTTTAGCCTATCTGATCTAACGGCAGATTTGCCAAACTTGGGAGgtgatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
EST: gi|12689880|gb|BG156216.1|BG156216
EST:     GGCAGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: GGCAGATTTGCCAAACTTGGGAGgtgatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
EST: gi|6913615|gb|AW395145.1|AW395145
EST:     ATGGAATTTTAGCCTATCTGATCTAACGGCAGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: ATGGAATTTTAGCCTATCTGATCTAACGGCAGATTTGCCAAACTTGGGAGgtgatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgttcaatcattgttggtgtcttcttgcttttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
                                             ttctttgc  CT-rich tract
       aatcatt  TA-rich tract