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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaacgttacaatcaccttgaaattttttttaaacatcatatatttttatattagttccaattccatattctctcctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGGAACCAAAAGTATTGCCCGTCTCACGAATATGATAAAACTGCTCGTTGTT

Basic information

species Arabidopsis thaliana
transcript AT2G39830.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G39830.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G34560.1 (Glycine max), 3'ss of exon 8
---------------gtaagcaac-gttacaatcaccttgaaattttttttaaacatcatatatttttatattagttccaatt-ccatattctctcctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGGAACCAAAAGTATTGCCCGTCTCACGAATATGATAAAACTGCTCGTTGTT
                || |   |   ||| ||    ||| ||| |||||  |  |  ||  |  |  | ||||   |   |     | ||      |||||||||||  |||| |||||| ||||| || ||| ||||||| || | ||||||||||||||||||||| ||||| ||||||||||| || ||||| || |
atcagaagacttctcctatgtgtctactactattggtttgtaatctttttacagtag-atgaaaatcaagattaacacttgtgattgtctttcactttcagATACCAATAAATGCTGCTGGTTTGATTGAATATAGATGCCACCCCTATTGGAACCAAAAGTATTGCCCATCTCATGAATATGATAATACAGCTCGGTGCT

upper sequence: AT2G39830.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA18G03810.1 (Glycine max), 3'ss of exon 6
-------gtaagcaac-gttacaatcaccttgaaattttttt------taaacatcatatatttttatattagttccaattccatattctctc---ctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGGAACCAAAAGTATTGCCCGTCTCACGAATATGATAAAACTGCTCGTTGTT
        || |   |   ||| ||    ||| ||| |||        | || | || |||     | ||||   |   |   ||  ||| ||    |||||||||||  |||| |||||| ||||| |||||| ||||||| || | |||||| ||||||||||| || ||||| ||||||||||| || ||||| || |
acttctcctatgtgtctactactattggtttgtaatctttacagttgatgaaaaacaaataagca-acattaacacttgtggtattgtctttcactttcagATACCAATAAATGCTGCTGGTTTGATTGAGTATAGATGCCACCCCTATTGGAATCAAAAGTATTGTCCATCTCATGAATATGATAATACAGCTCGCTGCT

upper sequence: AT2G39830.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA14G07060.1 (Glycine max), 3'ss of exon 5
----------------gtaagcaacgttacaatcaccttgaaattttttttaaacatcatatatttttatattagttccaattccatattctctcctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGGAACCAAAAGTATTGCCCGTCTCACGAATATGATAAAACTGCTCGTTGTT
                          || || | | |     || ||        || |     |||  ||  | |    | |   |||| |    |||||| || |  |||| |||||| ||||| |||||| | ||||| || ||||||  |||||||||||| || ||||| ||||||||||| || ||||| || |
gcctagtaaaaagattacctctggtctttcatttagcccatcatcttcacagttaataaggagctttattaacactaatgactttttattttaatttcagATTCCTATAAATGCTGCTGGTTTGATTGAGTATAGGTGCCACCCCTTTTGGTCCCAAAAGTATTGTCCATCTCATGAATATGATAATACAGCTCGCTGCT

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|116398785|gb|EG441377.1|EG441377
EST:     TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTT                         ATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG
genomic: TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTTgtaagcaacg ... ctctcctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG
EST: gi|116398788|gb|EG441380.1|EG441380
EST:     TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTT                         ATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG
genomic: TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTTgtaagcaacg ... ctctcctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG
EST: gi|116398790|gb|EG441382.1|EG441382
EST:     TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTT                         ATACTAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG
genomic: TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTTgtaagcaacg ... ctctcctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG
EST: gi|116398781|gb|EG441373.1|EG441373
EST:     TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTT                         ATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG
genomic: TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTTgtaagcaacg ... ctctcctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG
EST: gi|116398778|gb|EG441370.1|EG441370
EST:     TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTT                         ATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG
genomic: TTTGTTTCAAAGAGCTTACTCATCCCAAATGCGAAGTTTGTCACCATTTTgtaagcaacg ... ctctcctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttaaacatcatatatttttatattagttccaattccatattctctcctcagATACCAACTAATGATGCTGGCTTGATCGAGTATCGATGCCATCCGTTTTGGAACCAAAAGTATTGCCCGTCTCACGAATATGATAAAACTGCTCGTTGTT
                                    ttccatattctctcct  CT-rich tract
     taaacatcatatattt  TA-rich tract