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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAACACAAACCTACGAAGGGTTACTTATCTTGTTTTGGATGAGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATgttcgtttacttactcctgtcttcgtcatatatatgtgtatgctagttgctttgtctataacctttctttttaaacctgtgcag

Basic information

species Arabidopsis thaliana
transcript AT1G55150.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os01g10050.1 (Oryza sativa), 5'ss of exon 5
CAACACAAACCTACGAAGGGTTACTTATCTTGTTTTGGATGAGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATgt-----tcgtttacttactcctgtcttc-gtcatatatatgtgtatgctagttgctttgtctataacctttctttttaaacctgtgcag----------
  | |||||  | || ||||| ||||| |||||||| |||||||| || || ||||| |||||||| ||||| ||||||||   |||||||||||| || ||     || | | || | ||   | |||  |  |  | |  | | |  || ||    |  ||| |   |   |  ||  || | | ||           
TCATACAAATTTGCGGAGGGTCACTTACCTTGTTTTAGATGAGGCAGACCGGATGCTGGATATGGGCTTTGAACCTCAGATTAAGAAAATTGTTTCTCAGgtatgcctcttcttctgaatctattattccattctcaacaattttctaataattatgcttgctacatgttacatgcttttacttatacactgtcaacaga

upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G143246_T01 (Zea mays), 5'ss of exon 5
CAACACAAACCTACGAAGGGTTACTTATCTTGTTTTGGATGAGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATgttcgtttacttactcctgtcttcgtcatatatatgtgtatgctagttgctttgtctataacctttctttt-taaacctgtgcag-----------------
  | |||||| | |||||||| || ||||||||||| ||||| || || || ||||| || ||||| ||||| ||||||||   |||||||||||| || || || ||  || || ||   |      |   |   | | | ||  || ||       |  |  ||||    |||  |||||                    
TCATACAAACTTGCGAAGGGTCACATATCTTGTTTTAGATGAAGCAGACCGGATGCTAGACATGGGATTTGAACCTCAGATTAAGAAAATTGTTTCTCAGgtacgctt--ttgctgctacatgaaatgttactgcctctgtcctgattcctgaaaaggttgcaattctagaataatgctgtgttaaagtttgacaaaatttg

upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G01260.1 (Glycine max), 5'ss of exon 5
CAACACAAACCTACGAAGGGTTACTTATCTTGTTTTGGATGAGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATgttcg-tttacttactcctgt--------cttcg---tcatatatatgtgtatgctagtt--gctttgt-ctataacctttctttttaaacctgtgcag--
  | || ||| | |  ||||| || || ||||| |||||||| |||||| | ||| | |||||||||||||| |||||| | ||||| ||||| || || ||| | |||| ||  |  |||         || |   || || |  |        | ||      ||||  || |||  || ||| | |   |   |||  
TCATACCAACTTGCAGAGGGTCACATACCTTGTATTGGATGAAGCTGATAGGATGTTGGATATGGGGTTTGATCCTCAGCTACGGAAGATTGTCTCCCAGgttggctttattttatgatgtggtaaatattttgaaatcgtacaatttcaagaaatggtgtaatattgtattacaactattgtttgtcactgt-cacagtc

upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G20670.1 (Glycine max), 5'ss of exon 5
CAACACAAACCTACGAAGGGTTACTTATCTTGTTTTGGATGAGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATgttcg-tttacttactcctgtcttcgtcatatatatgt-gtatgctagttgctttgtctataacctttctttttaaac-ctgtgcag-------------
  | || ||| | |  ||||| || || ||||| |||||||| |||||| | ||| | |||||||||||||| |||||| | ||||| ||||| || || ||| | |||| ||  |   ||  |    || |  |  | |||   |            | |||  ||   ||  ||    |||                 
TCATACCAACTTGCAGAGGGTCACATACCTTGTATTGGATGAAGCTGATAGGATGTTGGATATGGGGTTTGATCCTCAGCTACGGAAGATTGTCTCTCAGgttggctttattttatgaggtggtaaatattttgaaatcgtaaaattccaagaaatggtgtaatattgtattacaagtattgtttgtcagtgccacagtc

upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv09s0002g02100.t01 (Vitis vinifera), 5'ss of exon 5
CAACACAAACCTACGAAGGGTTACTTATCTTGTTTTGGATGAGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATgttcgttt-----------acttactcctgtcttcgt-catatatatgtgtatgctagttgctttgtctataacctttctttttaaacctgtgcag----
  |||||||| | |||||||| ||||| |||||  |||||||||||||||| ||| | |||||||| ||||| || |||||  | ||||||||||| || ||| ||||           | || || |  ||||  |      |||  || |    | || ||    |  || |   |||||||| |   | | |     
TCACACAAACTTGCGAAGGGTCACTTACCTTGTGCTGGATGAGGCTGATCGGATGTTAGATATGGGTTTTGAACCGCAGATTAGAAAAATTGTTTCTCAGgttggtttttgacgattatatttgctaccatctttttatgctaataattggaaagcattttctgctaccttagctcctctttttagaagagagtattaat

upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S59_81V6.1 (Physcomitrella patens), 5'ss of exon 6
CAACACAAACCTACGAAGGGTTACTTATCTTGTTTTGGATGAGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATgttcgtttacttactcctg---------tcttcgtcatatatatgtgtatgctagttgctttgtctataacctttctttttaaacctgtgcag--------
  |||| ||  | || || || || ||  | || ||||| ||||| ||||||||||| || ||||||||||| || ||||| ||||| ||||| || || ||  || |   | |    |         |    |   |  | | ||| | || |||   || |  | |         |    |     ||           
ACACACGAATTTGCGGAGAGTGACGTACTTGGTGTTGGACGAGGCCGATCGAATGCTGGACATGGGGTTTGAACCGCAGATTCGGAAGATTGTATCGCAGgtgagtatgggtgcgtgcgagggtgggttggcagcggttgaaaagtgca-gcgagtgagttaggttgtggggcgcgctgggtagttgttgtcatggcacgt

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|116454669|gb|EG497261.1|EG497261
EST:     GAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACAT                         ATTCGGCCAGACCGTCAAACTTTGTACTGGAGTGCCACTTGGCCTAAGGAG
genomic: GAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATgttcgtttac ... acctgtgcagATTCGGCCAGACCGTCAAACTTTGTACTGGAGTGCCACTTGGCCTAAGGAG