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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTAGGATTGACCGGTACAAAGCTGGGATGCGGCGAAGGTGGTTGTGGGGCTTGCACGGTGATGGTGTCTAGTTATGACAGGAAGTCAAAGACCTCTGTgtgcgtatctgtccctcctatatgttggctttgtttagtttatatttgcgccttcttattgattctttctctgttcatacggaaacttttattgcag

Basic information

species Arabidopsis thaliana
transcript AT4G34890.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G34890.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM5G888877_T01 (Zea mays), 5'ss of exon 1
ATTTAGGATTGACCGGTACAAAGCTGGGATGCGGCGAAGGTGGTTGTGGGGCTTGCACGGTGATGGTGTCTAGTTATGACAGGAAGTCAAAGACCTCTGTgtgcgtatctgtccctcctatatgttg--gctttgtttagtttatatt-tgcgccttcttattgattctttctctgttcatacggaaac-ttttattgcag
     ||  |    || |||||||| ||||| || |||||||||||||| |||||||| || ||||| ||| | |||||| | |   ||||||  ||  |||  | |       |   ||     |   | | ||  |  | | | || |||     |  ||| |         ||   | |   | |  ||| | ||   
-----GGCCTTCGAGGGACAAAGCTTGGATGTGGTGAAGGTGGTTGTGGAGCTTGCACTGTCATGGTCTCTTGCTATGACCGAATTACAAAGAAATCACTgtaagaactacattcctgtactgactaatgttctgaatgctctctcttctgcctaaaccaattaaagtgacaggtgacaacagaaatatatttcaatgtt-

upper sequence: AT4G34890.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G03870.1 (Glycine max), 5'ss of exon 2
ATTTAGGATTGACCGGTACAAAGCTGGGATGCGGCGAAGGTGGTTGTGGGGCTTGCACGGTGATGGTGTCTAGTTATGACAGGAAGTCAAAGA------CCTCTGTgtgcgtatctgtccctcctatatgttggc--tttgtttagtttatatttgcgccttcttattgattctttctctgttcatacggaaacttt--tattgcag--------------------
|| ||||  ||||||| ||||| || ||||| || |||||||||||||| |||||||| || ||||| |||   | ||| || |  |  ||||      | |  |||||    ||  ||  ||   |   ||||   |||| |     || || ||     |        | |||  | | |    |||  || |||   |||  ||                    
ATATAGGTCTGACCGGGACAAAACTAGGATGTGGGGAAGGTGGTTGTGGAGCTTGCACAGTTATGGTTTCTCAATTTGATAGAAGATTGAAGAAATGCTCgtaagtgtgtcgttcactctttctcgtgccttggtgatttgatgctcctacatgtgaagtgtgaagcacttccttcttgtatcttgacgtcaaatttaccattttagttttgaaaatgttctttcag

upper sequence: AT4G34890.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0004g02030.t01 (Vitis vinifera), 5'ss of exon 2
ATTTAGGATTGACCGGTACAAAGCTGGGATGCGGCGAAGGTGGTTGTGGGGCTTGCACGGTGATGGTGTCTAGTTATGACAGGAAGTCAAAGACCTCTGTgtgcgtatctgtccctcctatatgttggctttgtttagtttatatttgcgccttcttattgattctttctctgttcatacggaaacttttattgcag------
|  ||||  |||| || |||||| |||| || |||||||||||||||||||||||||| |||||||| |||  || |||    || || ||||  | |||||| |||||| || |    || | |   | |   ||  |  | |  |    ||| ||  |       |    ||| | |   ||   || | | |        
ACATAGGTCTGACGGGGACAAAGTTGGGCTGTGGCGAAGGTGGTTGTGGGGCTTGCACTGTGATGGTTTCTTATTTTGATGAAAATTCGAAGAAATGTGTgtgagtatctttctcc---atttctctccctcccttcttgaagaactatatcttgttcctccacaggtaatggtttagagttaattcttgactacgacgagcg

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|116402452|gb|EG445044.1|EG445044
EST:     GCTTGCACGGTGATGGTGTCTAGTTATGACAGGAAGTCAAAGACCTCTGT                         GCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTATTCTGTAGAAGGGAT
genomic: GCTTGCACGGTGATGGTGTCTAGTTATGACAGGAAGTCAAAGACCTCTGTgtgcgtatct ... tttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTATTCTGTAGAAGGGAT
EST: gi|116403022|gb|EG445614.1|EG445614
EST:     GCTTGCACGGTGATGGTGTCTAGTTATGACAGGAAGTCAAAGACCTCTGT                         GCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTATTCTGTAGAAGGGAT
genomic: GCTTGCACGGTGATGGTGTCTAGTTATGACAGGAAGTCAAAGACCTCTGTgtgcgtatct ... tttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTATTCTGTAGAAGGGAT