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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctaaagaaagagatagatagatagataacatcaggtttagttagttctggtggtgaatggttttgctaatgaaagaatggttggactaataatagGCTATAGATGGTCTATACTGCGTGGGGGATAGTTGTTTTCCTGGCCAGGGAGTTATAGCTGTGGCTTTTTCAGGAGTGATGTGTGCTCATCGGGTAGCTG

Basic information

species Arabidopsis thaliana
transcript AT1G06820.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 11
gtaagctaa--agaaagagatagatagatagataacatcaggtttagttagttctggtggtgaatggttttgctaatgaaagaatggttggactaataatagGCTATAGATGGTCTATACTGCGTGGGGGATAGTTGTTTTCCTGGCCAGGGAGTTATAGCTGTGGCTTTTTCAGGAGTGATGTGTGCTCATCGGGTAGCTG
|||||   |  | ||| | |  | |   |  |||  | ||   |    |  || | |     |||| ||    |||   |  ||    |  |  | |   |||  ||||||||||| ||||| || || ||||| || || ||||| || || ||||| ||||| ||||| |||||||| |||||||||||||| |||||||
gtaagtctaccataaacaaacggttcagtt-atagaaacattctgctatgcttttagaatgcaatgattaaagtaagccataaacaaataaa--actttcagGGCATAGATGGTCTTTACTGTGTTGGCGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 11
gtaag-ctaaagaaagagatagatagatagat-aacatcaggtttagttagttctggtggtgaatggttttg-ctaatgaaaga-atggttggactaa--taatagGCTATAGATGGTCTATACTGCGTGGGGGATAGTTGTTTTCCTGGCCAGGGAGTTATAGCTGTGGCTTTTTCAGGAGTGATGTGTGCTCATCGGGTAGCTG
||||| |||     | |   | |||  | | | |      |    | |  | | || |  |  | ||   ||  |||  ||||  ||      |  ||  |   |||  ||||||||||| ||||| || || ||||| || || ||||| || || ||||| ||||| ||||| |||||||| |||||||||||||| |||||||
gtaagtctacttccacaagaaaataactggttcagttatggaaacactctgctatgcttttagaaggcactgattaactaaagccataaaccaataaaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 11
gtaagctaaagaaaga--gatagatagatagataacatcaggttt---agttagttctgg---tggtgaatggttttgctaatgaaagaatggttggactaataatagGCTATAGATGGTCTATACTGCGTGGGGGATAGTTGTTTTCCTGGCCAGGGAGTTATAGCTGTGGCTTTTTCAGGAGTGATGTGTGCTCATCGGGTAGCTG
||||| |  |  |  |    ||||| | ||  ||      | |||   | || ||| |     | |||||||   | | | ||| ||  ||||       | |   |||||||| ||||||| ||||| || |||||||| || ||||| || || || ||||||||||| || |||||||| || |||||||| || || || ||||
gtaagttttaccataatcagtagatggttaagtatttagcgattttttatttggtttttagcttagtgaatgaactggatcatgtaatgatgga------acttgcagGCTATACATGGTCTCTACTGTGTTGGGGATAGCTGCTTTCCAGGACAAGGTGTTATAGCTGTAGCCTTTTCAGGTGTAATGTGTGCACACCGAGTGGCTG

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|124787070|gb|EH876749.1|EH876749
EST:     TGCCTAGAGGAACCCCGAAAGGTTTATTAGGCATGCCATTCAATACAACG                         GCTATAGATGGTCTATA
genomic: TGCCTAGAGGAACCCCGAAAGGTTTATTAGGCATGCCATTCAATACAACGgtaagctaaa ... ctaataatagGCTATAGATGGTCTATA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagttctggtggtgaatggttttgctaatgaaagaatggttggactaataatagGCTATAGATGGTCTATACTGCGTGGGGGATAGTTGTTTTCCTGGCCAGGGAGTTATAGCTGTGGCTTTTTCAGGAGTGATGTGTGCTCATCGGGTAGCTG
                                           gactaat  putative branch site (score: 2)
                                            actaataata  TA-rich tract