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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggataatcttgcttgtttgatatctaggtgctttaaagtgataaatattttctgattcttaattaatgcaaagtggttcacgctctaatggtgcatcattggtcacttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAACCAG

Basic information

species Glycine max
transcript GLYMA20G24070.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G24070.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 12
gtaaggataatcttgcttgtttgatatctaggtgctttaaagtgataaatattttctg-attcttaattaatgcaaagtggttcacgctctaatggtgcatcattggtcacttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAACCAG
                                           ||||| | || | |   || | |     |     |  | | | | | |||     ||   ||    ||| ||||||||||||||||||||||| |||||  | || || ||||| |||||||| || |||
---------------------------------------gtaagataagttttctgtatgttttcagcatttatgttgaaggtta-gttgtaagaac-cac--ttaacaactcctgcagAGTGCTATTGGTGAGGGCATGACACGTAGAGACCATTCGGATGTGTCTAATCAG

upper sequence: GLYMA20G24070.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 11
gtaaggataatcttgcttgtttgatatctaggtgctttaaagtgataaatattttctg-attcttaattaatgcaaagtggttcacgctctaatggtgcatcattgg-tcacttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAACCAG
                                           ||||| | || | |   || | |     |     || | | | | |||||    | | || ||  | ||| ||||||||||||||||||||||| |||||  |  | || ||||| ||||| || || |||
---------------------------------------gtaagataagttttctgtatgttttcagcatttatgttgtagatta-gttctaa----gaaccactgaataactcctgcagAGTGCTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG

upper sequence: GLYMA20G24070.1 (Glycine max), 3'ss of exon 13
lower sequence: AT4G38510.4 (Arabidopsis thaliana), 3'ss of exon 13
gtaaggataatcttgcttgtttgatatctaggtgctttaaagtgataaatattttctgattcttaattaatgcaaagtggttcacgctctaatggtgcatcattggtcacttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAACCAG
                                       ||||| |      ||    | |  ||  | | || || || |  |   | |||  ||  |  ||   |   |  |||||||||| ||||||||||| |||||| | ||||| || |||||||| || || || 
-------------------------------------gtaagtg-tgggggattcaaaaataatagatgaagccaaatgatcga--ttgtaaacgta-acaatgactttgtattgcagAGTGCCATTGGTGAGGGTATGACTCGCAGGGACCACTCTGATGTTTCTAATCAA

upper sequence: GLYMA20G24070.1 (Glycine max), 3'ss of exon 13
lower sequence: PP1S100_117V6.1 (Physcomitrella patens), 3'ss of exon 12
gtaaggataatcttgcttgtttgatatctaggtgctttaaagtgataaatattttctgattcttaattaatgcaaagtggttcacgctctaatggtgcatcattggtcacttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAACCAG
            |||||| ||   ||| |       |||| ||  ||  | |  |    || |  || | | | |  |||||    ||  ||  | |   | |    |||| |||||||||||||||||  ||||||||||| ||| |||||||||||| || || ||||||
---------tgtttgctttttaagtatttc--ccacttaacgtt-taggtgtgattgagttatgtatcatttcgatttggttgggact--aactgagttcctt----cactcctgcagAGTGCTATTGGACAGGGAATGACTCGAAAGGATCATTCTGAAGTCTCTAACCAG

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|120495604|gb|EH223771.1|EH223771
EST:     ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAG                         AGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
genomic: ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAGgtaaggataa ... acttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
EST: gi|21256304|gb|BQ453192.1|BQ453192
EST:     ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAG                         AGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
genomic: ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAGgtaaggataa ... acttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
EST: gi|16279439|gb|BI943437.1|BI943437
EST:     ATATACCCACCAATCAACGTCCTCCCATCACTATCTCAGTTGATGAAG                         AGTGCTATTGGTGAGGGAATGACTAGTATGGATCATTCTGATGTGTCCAAC
genomic: ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAGgtaaggataa ... acttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
EST: gi|16276744|gb|BI942021.1|BI942021
EST:     ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAG                         AGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
genomic: ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAGgtaaggataa ... acttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
EST: gi|37996030|gb|CF807619.1|CF807619
EST:     ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAG                         AGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
genomic: ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAGgtaaggataa ... acttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
EST: gi|16278548|gb|BI942962.1|BI942962
EST:     ATATACCCACCAATCAACGTGCTCCCATCACTATCTCGGTTGATGAAG                         AGTGCTATTGGTGAAGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAA
genomic: ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAGgtaaggataa ... acttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAA-
EST: gi|21601974|gb|BQ612305.1|BQ612305
EST:     ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAG                         AGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC
genomic: ATATACCCACCAATCAACGTCCTCCCATCACTATCTCGGTTGATGAAGgtaaggataa ... acttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattaatgcaaagtggttcacgctctaatggtgcatcattggtcacttctgcagAGTGCTATTGGTGAGGGAATGACTAGAAGGGATCATTCTGATGTGTCCAACCAG
                       ctctaat  putative branch site (score: 3)
                                           tcacttct  putative PPT