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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgaaatgactaaatgcagtcaaggattataatcaagattttatatatgttcaatcattgttggtctcttcttgcttttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG

Basic information

species Glycine max
transcript GLYMA16G02860.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G02860.2 (Glycine max), 3'ss of exon 7
lower sequence: AT3G61700.1 (Arabidopsis thaliana), 3'ss of exon 7
ttgaaatgactaaatgcagtcaaggattataatcaagattttatatatgttca-atcattgttggtctcttcttgcttttactgtct--------tgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
              |    |  |   | ||  |     |||||| | ||   |    |||||  || |  |   |   | | | ||         |  ||   |||||||| |||||||  | ||||||||||| || || |||||| | |||||||||||||| ||||| || || |||||||| ||| |||| ||||
-------------gtaagtttcaatgtcatccttctctttttatttctggctatggaattgtcagttttataaagagctgattatcagataaagatatgtatgttgcagATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGACATAG

upper sequence: GLYMA16G02860.2 (Glycine max), 3'ss of exon 7
lower sequence: AT2G46420.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------ttgaaatgactaaatgcagtcaagga---ttataatcaagattttatatatgttcaat-cattgttggtctcttcttgcttttac-tgtct-tgagtt----ctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
                   ||  ||  | |  |    || |  |   |||||| ||    ||  || ||| || ||  |  | ||  |||       | || | | ||  |||  |    |||||||||| |||| ||| | ||||||||||| ||||| || ||| |||||||||||||||| ||||| || || ||||| || ||| |||| ||||
gtaagctctttttatcaaatgccattgcgagtttagctcgaaaaactttataa-catacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAG

upper sequence: GLYMA16G02860.2 (Glycine max), 3'ss of exon 7
lower sequence: AT2G46420.2 (Arabidopsis thaliana), 3'ss of exon 7
------------------ttgaaatgactaaatgcagtcaagga---ttataatcaagattttatatatgttcaat-cattgttggtctcttcttgcttttac-tgtct-tgagtt----ctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG----------
                   ||  ||  | |  |    || |  |   |||||| ||    ||  || ||| || ||  |  | ||  |||       | || | | ||  |||  |    |||||||||| |||| ||| | ||||||||||| ||||| || ||| |||||||||||||||| ||||| || || ||||| || ||| |||| ||||          
gtaagctctttttatcaaatgccattgcgagtttagctcgaaaaactttataa-catacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA

upper sequence: GLYMA16G02860.2 (Glycine max), 3'ss of exon 7
lower sequence: AT3G61700.2 (Arabidopsis thaliana), 3'ss of exon 7
ttgaaatgactaaatgcagtcaaggattataatcaagattttatatatgttca-atcattgttggtctcttcttgcttttactgtct--------tgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
              |    |  |   | ||  |     |||||| | ||   |    |||||  || |  |   |   | | | ||         |  ||   |||||||| |||||||  | ||||||||||| || || |||||| | |||||||||||||| ||||| || || |||||||| ||| ||||     
-------------gtaagtttcaatgtcatccttctctttttatttctggctatggaattgtcagttttataaagagctgattatcagataaagATATGTATGTTGCAGATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGA-----

upper sequence: GLYMA16G02860.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
ttgaaatgactaaatgcagtcaaggattataatcaagattttatatatgttcaatcattgttggtctcttcttgcttttact-gtcttgagttc-tttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
 ||| | |    |  | |    |    |        |||| | | | |  || || ||       ||| | ||    | | | ||  |||  || |||||||||||||||||| |||||||||| || ||||| || ||| ||   |||||||||||||||||||| || ||||| || ||| |||||||||
-tgagaaggtatatggtatatcactgctgctgcatggattattt-tgtaatccattatgagcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG

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|6482602|gb|AW201847.1|AW201847
EST:     GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAGgtaatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
EST: gi|22928262|gb|BU545401.1|BU545401
EST:     GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAGgtaatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
EST: gi|22928383|gb|BU545522.1|BU545522
EST:     GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAGgtaatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
EST: gi|9204434|gb|BE330658.1|BE330658
EST:     CTGGAATTATAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAG                         ATCTATGAGCTCTGGGAAACTATCCTGG
genomic: GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAGgtaatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGG
EST: gi|9564325|gb|BE473834.1|BE473834
EST:     GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAGgtaatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
EST: gi|58020902|gb|CX707644.1|CX707644
EST:     GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAGgtaatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
EST: gi|58020559|gb|CX707301.1|CX707301
EST:     GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAGgtaatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
EST: gi|58020730|gb|CX707472.1|CX707472
EST:     GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAG                         ATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT
genomic: GTGGAATTTTAGCTTATCTGATCTAACGGCTGATTTGCCAAACTTGGGAGgtaatttctt ... ttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgttcaatcattgttggtctcttcttgcttttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
                                             ttctttgc  CT-rich tract
       aatcatt  TA-rich tract