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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtccttgaatcccttttgctaaatgcattgttgagttgttatctttgatgcttgtatatgtatttgttctttaagagttctctgttgttagagagtgactggtgaaatctctgtgttgtgtcttagGCTTCTGGGACGACCACAGACAACAGCTGTGAGTCTGTGGTCGTGAGTGGTCAGCAACGTCAGCAGCAAAACCCAACACATCAGCATCCTCAGCGTGATG

Basic information

species Arabidopsis thaliana
transcript AT1G30490.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G30490.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G023291_T01 (Zea mays), 3'ss of exon 2
------------------------------gtaagtcct---tgaatcccttttgctaaatgcatt-gttgagttgtt----atctttgatgcttgtatatgtatttgttctttaagagttctc-------tgttgttagagagtgactggtgaaat-ctctgtgttgtg----tcttagGCTTCTGGGACGACCACAGACAACAGCTGTGAGTCTGTGGTCGTGAGTGGTCAGCAACGTCAGCAGCAAAACCCAACACATCAGCATCCTCAGCGTGATG
                              | |  || |   |  ||   |||| ||| ||  ||  | ||| | |       | |    |  | ||  |||    |||| | |   |||| |          ||||   |   |  |  ||  ||| |  |||||| ||    |   || ||||||   |||| |||||||  ||||||||||||||||||   ||||||||||| |  || |||||||||||| ||  || || |||||| || ||||
gtgagatccatctcccttgctcattccccagaacatcttatttatatttttttttctagataaatcagctgaatggcacaaagtatcatgtagtagtgaatggtgctgttttatgtaagttttgatgcgaaccttgtcgcatgattccacgtctaataccgtgtgttttgatatttgcagCCTTCTGCTGCGACTACAGACACGAGCTGTGAGTCTGTGGTCACAAGTGGTCAGCACCACCAACAGCAAAACCCAGCAGCTCCGCGTCCTCAACGGGATG

upper sequence: AT1G30490.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G13640.1 (Glycine max), 3'ss of exon 2
gtaagtccttgaatcccttttgctaaatgcattgttgagttgttatctttgatgcttgtatatg-tatttgttctttaagagt-tctctgttgttagagagtgact-ggtgaaatctctgtgttgtgtcttagGCTTCTGGGACGACCACAGACAACAGCTGTGAGTCTGTGGTCGTGAGTGGTCAGCAACGTCAGCAGCAAAACCCAACACATCAGCATCCTCAGCGTGATG
             |    ||  |||  |   |   ||  ||  |    || ||  ||||  ||| | |||||  |||  || | | |   | | |  |   ||  | |||   | || ||    |  |  |      |||| || ||||||||||| |||||||||||||||||  ||||||||||  |    || |||||||||||||||| |||||||||  | || ||||
------------gtgatattctctatctctctctctgtctttcttctcttcat-tttgtgaatgctttttgtattttctgaatatattaatggctgaaccatgttttggtttgaactttgaacagGCTTCTG-----CTGGTACTACCACAGACAATAGCTGTGAGTCTGTGGTAATGAGTGGTCAAAA---CCAACAGCAAAACCCAACACCTCAGCATCCCAACCGGGATG

upper sequence: AT1G30490.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G02750.1 (Glycine max), 3'ss of exon 2
gtaagtccttgaatcccttttgctaaatgcattgttgagttgttatctttgatgcttgtatatgtatttgttctttaagagttctctgttgttagagagtgactggtgaaatctctgtgttgtgtctt----agGCTTCT---GGGACGACCACAGACAACAGCTGTGAGTCTGTGGTCGTGAGTGGTCAGCAACGTCAGCAGCAAAACCCAACACATCAGCATCCTCAGCGTGATG
                                         || | | ||  | ||  |   | | |   | ||||  | ||| | | |  |   | | ||| |     |   | ||  |||    ||    ||||||||   || || ||||||||||| |||||||||||||||||  ||||||||||  |    || |||||||||||||||| |||||||||  |  | ||||
-----------------------------------------gtgagcctttcttctctttattttgtgaatgctttttgtgttttttttaatataataatgattcaaccatgttttggtttgaactttgaacagGCTTCTGCAGGTACTACCACAGACAATAGCTGTGAGTCTGTGGTTATGAGTGGTCAAAA---CCAACAGCAAAACCCAACACCTCAGCATCCCAATAGGGATG

upper sequence: AT1G30490.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA05G30000.1 (Glycine max), 3'ss of exon 2
-----------------------gtaagtccttgaatcccttttgctaaatgcattgttgagttgttatctttgatgcttgtatatgtatttgttctttaagagttctctgttgttagagagtg--actggtgaaatctctgtgttgtgtcttagGCTTCTGGGACGACCACAGACAACAGCTGTGAGTCTGTGGTCGTGAGTGGTCAGCAACGTCAGCAGCAAAACCCAACACATCAGCATCCTCAGCGTGATG
                        |   || |   |    |  | || ||||  |  |||   |   ||  |   |   |  |    ||| |||  | ||  | ||   |||| ||  ||| |   | |       |   |     |  |||    || ||   || || || ||||| ||||||||||||||||| ||||||||||| ||    || | ||||||||| | |  ||||||||| |||       
gtgagtaacttaacctttgagcaattgctcttctcaattatcattctgaatgt-tcattggtgtaccattctatctatatacaagaatatgtgtagtgtactattttattgttattgaagaatctcatttactggtttcttaacagGCATCTGCTACTACTACTACTACTACTGACAATAGCTGTGAGTCTGTGGTAGTGAGTGGTCAACA---CCAACCGCAAAACCCCAAAACTCAGCATCCCCAGT------

upper sequence: AT1G30490.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv10s0003g04670.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtccttgaatcccttttgctaaatgcattgttgagttgttatctttgatgcttgtatatgtatttgttctttaagagttctc-tgttgttagagagtgactggtgaaatctctgtgttgtgtcttagGCTTCTGGGACGACCACAGACAACAGCTGTGAGTCTGTGGTCGTGAGTGGTCAGCAACGTCAGCAGCAAAACCCAACACATCAGCATCCTCAGCGTGATG
                 |||  |      | |  || |      || |  || | ||   |||  |||  |   |||| ||| ||  |||| ||| | |    ||  |    |  |||  || | |   |||| |||    ||||||||||||  ||||| |||||||||||| |||| |||||||| |  || |||||||||||||||| ||||||||||||  | ||||
-----------------tttcac------cttctttaaaccagcat-taggaagttttgctatccattgttcaattaatagtacttatgttcttataaat---ctcat----ttgctggattatataccagGCATCTACAGCGACCACAGACACTAGCTGCGAGTCTGTGGTCATGAGCGGTCAGCACCAACAACAGCAAAACCCAACACCTCAGCATCCTCAAAGGGATG

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|116415557|gb|EG458149.1|EG458149
EST:     TCTCCAACTTGGTTTATGAGAATGGATTCATGAAACATCGAATCCACACT                         GCTTCTGGGACGACCACAGACAACAGCTGTGAGTCTGTGGTCGTGAGTGGT
genomic: TCTCCAACTTGGTTTATGAGAATGGATTCATGAAACATCGAATCCACACTgtaagtcctt ... tgtgtcttagGCTTCTGGGACGACCACAGACAACAGCTGTGAGTCTGTGGTCGTGAGTGGT