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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attgtttacgagctaaatccttgttcagaatccctggaagctcaaatgtgcaaaacatctatttttgtgaaacatactgacatttataaatgtttattagGTATTTGGGATGATGACAAAGCCATTGATCAGGCTGCTGCTACCGGCCTCAGGCCATCCTGTCACCTCTGAGCCTTCATCACCAAAGTCCCTGCATTCTC

Basic information

species Oryza sativa
transcript LOC_Os07g47100.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G027851_T02 (Zea mays), 3'ss of exon 12
--attgtttacgagctaaatccttgttcagaatccctggaagctcaaatgtgcaaaacatctatttttgtgaaacatactgacatttataaatgtttattagGTATTTGGGATGATGACAAAGCCATTGATCAGGCTGCTGCTACCGGCCTCAGGCCATCCTGTCACCTCTGAGCCTTCATCACCAAAGTCCCTGCATTCTC
   |  ||| ||   | | |  ||   ||  ||       || ||   | |    ||| || |   |  ||||   | |||||||||   ||||   || |||| |||||||||||||| |||||||||||| |||||||||| || ||||   || |  | | |||||| ||||| || ||||| ||||||||||| || |
ccctacttttcggatttactatttacacaatatatactacag-tcgtttcttaccaacttccacaatc-tgaatgtttctgacattttgcaatgaccatcagGTGTTTGGGATGATGACGAAGCCATTGATCCGGCTGCTGCTCCCTGCCTGCAGCAACACGGCCACCTCCGAGCCGTCCTCACCCAAGTCCCTGCACTCGC
















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|87016324|gb|CI271735.1|CI271735
EST:     ACCAGCACCATCACTGTCGTTCTTTTTAGCACTATG                         GTATTTGGGATGATGACAAAGCCGTTGATCAGGCTGCTGCTACCGGCCTCA
genomic: ACCAGCACCATCACTGTCGTTCTTTTTAGCACTATGgtgagtcatc ... tgtttattagGTATTTGGGATGATGACAAAGCCATTGATCAGGCTGCTGCTACCGGCCTCA
EST: gi|27549114|gb|CA767092.2|CA767092
EST:     ATGCAATAATGATCACCAGCACCATCACTGNCGNTCTTTTTAGCACTATG                         GTATTTGGGATGATGACAA
genomic: ATGCAATAATGATCACCAGCACCATCACTGTCGTTCTTTTTAGCACTATGgtgagtcatc ... tgtttattagGTATTTGGGATGATGACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtgcaaaacatctatttttgtgaaacatactgacatttataaatgtttattagGTATTTGGGATGATGACAAAGCCATTGATCAGGCTGCTGCTACCGGCCTCAGGCCATCCTGTCACCTCTGAGCCTTCATCACCAAAGTCCCTGCATTCTC
                             tactgac  putative branch site (score: 1)
                                tgacatttataaatgt  TA-rich tract