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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggttggtttggtttcaagattgaacttatcattatgatagttttttaggtttttttcttcttcttcttcttattctttgtgctttttatggtgtgttttggtcagGGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTATTCTTGACGCGTCTTGGTATAGACAAGGACCGATTGAGGTTTAGGCAAC

Basic information

species Glycine max
transcript GLYMA08G47890.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G47890.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g42560.1 (Oryza sativa), 3'ss of exon 4
-------------gtaaggttggtttggtttcaag-attgaacttatcattatgatagttttttaggttt---ttttcttcttcttcttcttattctttgtgctttttatggtgtgttttggtcagGGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTATTCTTGACGCGTCTTGGTATAGACAAGGACCGATTGAGGTTTAGGCAAC
             |    | ||      || ||    ||||| ||  |||  |  |  ||||||   ||      |  | ||||| |    | |  | |       || |    |||||    ||||||| ||| || ||||||||||||||||||||||| ||||| || ||||| ||| | || ||| | ||||| || ||  ||||  |  | || ||||| |
gtacatcgtcgctgccttgctgaccaatttgcagttgttgaatttgacatgtttctctttttttgtattaagaggtgttacttctccgagctgtcttattcaaaacttctatcttgtttcta-cagGGAACTGTTAATAATGAGACACTTGGTTACTTCATTGGGAGGGTCTATCTTTTCCTAACACGTTTGGGTATTGATAAAAACCGGCTACGCTTCAGGCAGC

upper sequence: GLYMA08G47890.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM5G821551_T03 (Zea mays), 3'ss of exon 4
------------gtaaggttggtttggtttcaagattgaacttatcattatgatagttt-tttaggtttttttcttcttcttcttcttattctttgtgctttttatggtg-tgttttggtcagGGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTATTCTTGACGCGTCTTGGTATAGACAAGGACCGATTGAGGTTTAGGCAAC
                  ||   |   |||| || ||||     || || || |  ||| ||||  | |  || |||||   ||   ||   ||      | |||   |  |||| |   ||||||| ||| || ||||||||||||||||||||||| || || || ||||| ||| ||||  |  | || || || |||| ||| ||| | || ||||| |
gttagcaattgctggcaattttctctctttccagtttgatacattccttttgttcttttgtttatatatgctttttcttaccctggatagaattgtaaactattacactactgttatttacagGGAACTGTTAATAATGAGACACTTGGTTACTTCATTGGAAGGGTCTATCTTTTCCTGACAAGCTTGGGAATTGATAAGGGCCGGTTGCGCTTCAGGCAGC

upper sequence: GLYMA08G47890.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G29880.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaggttggtttggtttcaagattgaacttatcattatgatagttttttaggtttttttcttcttcttcttct-tattctttgtgctttttatgg---tgtgttttggtcagGGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTATTCTTGACGCGTCTTGGTATAGACAAGGACCGATTGAGGTTTAGGCAAC
         ||| |  ||    ||   | |   |    | ||  |  |      |        |   || || | | || ||  ||| |   |  |   |    || |   |||| | ||| |||||||| || || || |||||||| |||||||||||||| ||| | || |||||||| || |||||||| ||  || | ||  | || |
---------gttagtatttgtaatcatattcgcctacttaattctactaagaactcgcacacacccatttttatatcttattgatgcctgacactgaaatcctattcgtatagGGTACTGTGAACAATGAAACTCTAGGATACTTCATTGGGAGAGTGTATCTTTTCCTTACTCGTCTTGGCATTGACAAGGAACGGCTGCGCTTCCGTCAGC

upper sequence: GLYMA08G47890.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 4
gtaaggttggtttggtttcaagattgaacttatcattatgatagttttttaggtttttttcttcttcttcttcttattctttgtgct--ttttatggtgtgtt-ttggtcagGGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTATTCTTGACGCGTCTTGGTATAGACAAGGACCGATTGAGGTTTAGGCAAC
     ||||||| |  ||| |   |  | | | | ||||  | ||||| |  ||      |  || || |  |||    | |||| |  | | |||||    |  || | |||||||||||||||||||||||||||  |||||||| |||||||| || |||||| | || |||||||| |||||||||||| | ||  | || || || |
-----gttggttcgaattctat-ctagattgacctttat--ttgttttgtttgtacaaaccaactgctccacctttgcatatgtgataatatgatggttcaatgctgattagGGAATTGTCAACAATGAGACACTTGCCTACTTCATTGGGAGAGTATACCTATTCCTAACACGTCTTGGCATAGACAAGGACAGGTTACGTTTCAGACAGC

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|208124123|gb|GD920965.1|GD920965
EST:     CTGTTTCCAAG                         GGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTA
genomic: CTGTTTCCAAGgtaaggttgg ... ttttggtcagGGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTA
EST: gi|16104863|gb|BI892603.1|BI892603
EST:     TGTCGGGTCAGTCTGCCAAGAGGATTCCTCTTCGTTTTGTTGTTTCCAAG                         GGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTA
genomic: TGTCGGGTCAGTCTGCCAAGAGGATTCCTCTTCGTGATGCTGTTTCCAAGgtaaggttgg ... ttttggtcagGGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttcttcttcttcttcttattctttgtgctttttatggtgtgttttggtcagGGAATTGTCAACAATGAGACACTTGGTTACTTCATCGGGAGAGTGTATCTATTCTTGACGCGTCTTGGTATAGACAAGGACCGATTGAGGTTTAGGCAAC
                   ttattcttt  TA-rich tract