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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAGgtattcatgccacttaagatttttcctttaaaatatcttatctgctactgcgtcgtgtgttcctttatttagagggaaaacaaaaagagtattccagatagcatcgtagttaagagtcaaaactttcattgagatgtgtgttgatttggttgtgtgcag

Basic information

species Arabidopsis thaliana
transcript AT2G20840.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G20840.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os07g37740.1 (Oryza sativa), 5'ss of exon 8
GTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAGgtattcatgccacttaagatttttcctttaaaatatcttatctgctactgcgt--cgtgtgtt---cctttatttagagggaaaacaaaaagagtattccagatagcatcgtagttaagagtcaaaactttcattgagatgtgtgttgatttggttgtgtgcag
|    |  |||||||| || || || ||||| ||||| || ||||||||||| || |||||| | |||||||| ||||| |||  ||| ||||||||||  | |  |     | || ||| |     | |  | | |   | |  ||  | | | ||   |  || ||| |  |                                                                                    
GCGTGAAGATATGGTTGCTGGCAATCATCTACTTCATCTCTGGGGTTCCTGGTGCATATGTTTTATGGTATCGACCTCTGTATAATGCTATGAGgtattgtttctgc---gaacttctccgtgcttttcttgtgtatatgagtaagtaacatttattggacacttgttttgtag------------------------------------------------------------------------------------

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os05g42330.1 (Oryza sativa), 5'ss of exon 7
GTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAGgt-attcatgccacttaagatttttccttta---aaatatcttatctgctactgcgtcgtgtgttcctttatttagagggaaaacaaaaagagtattccagatagcatcgtagttaagagtcaaaactttcattgagatgtgtgttgatttggttgtgtgcag
||   |  || ||||| || ||||||||||| |||||||| || || ||||| || |||||  | ||||| ||||||||||||  ||| |||||||     ||   |  | ||  || |    ||   || | | | | ||  ||     ||   |   |   | | | |          ||  |  | || |||                                                              
GTGTTATTATCTGGTTGCTTGCTATTATCTACTTCATATCTGGTGTACCTGGTGCTTATGTGTTATGGTACCGCCCTCTTTATAATGCAATGAGgttggatatattaaatgagcattgttggctacacaactttttcaccttttaaaatatctaatacgctagtgtcttgttcttttttcaat-gcctgttacag--------------------------------------------------------------

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA06G45160.1 (Glycine max), 5'ss of exon 8
GTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAGgta----ttcatgccacttaa---gatttttcc--tttaaaatatct-tatctgctactgcgtcgtgtgttcctttatttagagggaaaacaaaaagagtattccagatagcatcgtagttaagagtcaaaactttcattgagatgtgtgttgatttggttgtgtgcag
||||||| || |||||||| |||||||||||||| || || || | ||| ||| | |||||  ||||||||||||||||||||||||| ||||||||    |  ||   | ||||    |||||| |  |||| ||||    |||||| |   | ||  |     |  ||  ||| |  ||||| ||||  |                                                                       
GTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcgatcagatttaatgcaatttttgcaatttagaatagggatatctgttcaagagttttacagccgatttgttaaactgaaaagaaaagaaaa---------------------------------------------------------------------

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA12G11820.1 (Glycine max), 5'ss of exon 8
GTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAGgta----ttcatgccacttaa---gatttttcc--tttaaaatatct-tatctgctactgcgtcgtgt-gttcctttatttagagggaaaacaaaaagagtattccagatagcatcgtagttaagagtcaaaactttcattgagatgtgtgttgatttggttgtgtgcag
||||||| || |||||||| || ||||||||||| || || || | ||| ||| | |||||  ||||||||||||||||||||||||| ||||||||    |  ||   | ||||    ||||||    |||| || |    ||||||||   | ||  |   |    ||| ||||   | |||  ||||| |                                                                       
GTCCAACCATCTGGTTTCTTGCAATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcaatcagatttaatgcaatttttgtagtttagaacagggatatctgcttaagagtttttcagcctatttgtttaactgaaaaggaaaaaaaa----------------------------------------------------------------------

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA12G11820.2 (Glycine max), 5'ss of exon 8
GTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAGgta----ttcatgccacttaa---gatttttcc--tttaaaatatct-tatctgctactgcgtcgtgtgttcc-tttatttagagggaaaacaaaaagagtattccagatagcatcgtagttaagagtcaaaactttcattgagatgtgtgttgatttggttgtgtgcag
                                                   || | |||||  ||||||||||||||||||||||||| ||||||||    |  ||   | ||||    ||||||    |||| || |    ||||||||   | ||  |     |  ||| ||||   | |||  ||||| |                                                                       
---------------------------------------------------GATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcaatcagatttaatgcaatttttgtagtttagaacagggatatctgcttaagagtttttcagcctatttgtttaactgaaaaggaaaaaaaa----------------------------------------------------------------------

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA12G32860.1 (Glycine max), 5'ss of exon 6
GTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAGgta---ttcatgccacttaagatttttcctttaaaatatcttatctgctactgcgtcgtgtgttcctttatttagagggaaaacaaaaagagtattccagatagcatcgtagttaagagtcaaaactttcattgagatgtgtgttgatttggttgtgtgcag
|||   |||| ||||| ||| |||| || || || || || || ||||| | | | ||||| |||||||||||||||||||||||||| |  |||||   ||||      || | |||      |||   |||   || |        |  |  |    | || ||   |      | ||| | | | ||   |                                                              
GTCTTTCAATCTGGTTCCTATCTATCATATACTTTATTTCCGGTGTTCCAGCATCCTATGTGATGTGGTATCGCCCTCTTTATCGTGCGACAAGgtagttttcaatttgattga-attcaattcttatggtatgacatgtatattcaagatgatttcaacctttttcctaaactttaaaaagaaattgttaatgt-------------------------------------------------------------

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv12s0059g01930.t01 (Vitis vinifera), 5'ss of exon 7
GTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAGgtattcatgccacttaagatttttcctttaaaatatcttatctgctactgcgtcgtgtgttcctttatttagagggaaaacaaaaagagtattccagatagcatcgtagttaagagtcaaaactttcattgagatgtgtgttgatttggttgtgtgcag
|||| ||||| |||||||| || || ||||| ||| ||||||||||||| ||||| |||||  |||||||||| ||||||||||||||||||||||| |      | ||| | || ||||   || ||  ||    |  ||          |   | | |||         ||    |  |  |    |   |  |  | |                                                    
GTCCGACAATTTGGTTTCTTGCCATCATCTACTTCTTATCAGGGGTTCCAGGAGCTTATGTGTTGTGGTATCGTCCTCTTTATCGTGCCATGAGgtact------atttatggttattcc--aaacatgactcccattatatcatccacactagacatatatcagacttccaattgtaggggatgggtcctgtcacgccatt---------------------------------------------------

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|86084332|gb|DR380091.1|DR380091
EST:     GTATCGCCCTCTTTATCGTGCCATGAG                         GACTGATAGTGCTCTGAATTTTGGGTGGTTTTTCTTCACGTATCTG
genomic: GTATCGCCCTCTTTATCGTGCCATGAGgtattcatgc ... ttgtgtgcagGACTGATAGTGCTCTGAAGTTTGGGTGGTTTTTCTTCACGTATCTG