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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcattggttttgttgtgataagtttgttatttaaaatgtgcccttcaactctcttaagattttccaccatgatccagTGACATTGATCATCATGTAAGCACAAAAGAACAGATCACCTTGCAAGACAACCCAGAGAAAACTGGATACTCAACATCCCAATTTGGCTTAGATG

Basic information

species Oryza sativa
transcript LOC_Os01g67250.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67250.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G421829_T01 (Zea mays), 3'ss of exon 3
gtaagttcattggttttgttgtgataagtttgttatttaa-aatgtgcccttcaactctctt--aagattttccaccatgatccagTGACATTGATCATCATGTAAGCACAAAAGAACAGATCACCTTGCAAGACAACCCAGAGAAAACTGGATACTCAACATCCCAATTTGGCTTAGATG
||||       |  | |||| | |||||||   ||||||  ||||  |  ||||  | | |   || | |||   |  |||||||| || | |||||||||||| ||||||||||| |||||||| ||||||||||||||||||||||| ||||| ||||||||||| |||||| ||||||
gtaaagctgcagcctctgtt-taataagttcactatttagtaatgctctgttcagttttttctgaacactttttgctttgatccagCGATACTGATCATCATGTGAGCACAAAAGAGCAGATCACTTTGCAAGACAACCCAGAGAAAACAGGATATTCAACATCCCAGTTTGGCCTAGATG

upper sequence: LOC_Os01g67250.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G093119_T01 (Zea mays), 3'ss of exon 3
gtaagttcattggttttgttgtgataagtttgttatttaa-aatgtgcccttcaactctctt---aagattttccaccatgatccagTGACATTGATCATCATGTAAGCACAAAAGAACAGATCACCTTGCAAGACAACCCAGAGAAAACTGGATACTCAACATCCCAATTTGGCTTAGATG
||||   |   | || ||| |  | |||||   ||||||| ||||     ||||| ||| ||   || | ||||| | || |||||| |||| |||||||||||| |||||||||||||||||||| ||||||||||||||||||||||| || || ||||||||||| |||||| ||||||
gtaaagccgcagcttctgtcg-aagaagttcactatttaagaatgctttattcaattcttttctgaacactttccgctattatccagCGACACTGATCATCATGTGAGCACAAAAGAACAGATCACTTTGCAAGACAACCCAGAGAAAACAGGGTATTCAACATCCCAGTTTGGCCTAGATG
















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|29630217|gb|CB635226.1|CB635226
EST:     GAGACATTCCATCTGGATGATTTTGAATTACCGGAGGCTGCATTTCAGGG                         TGACATTGATCATCATGTAAGCACAAAAGAACAGATCACCTTGCAAGACAA
genomic: GAGACATTCCATCTGGATGATTTTGAATTACCGGAGGCTGCATTTCAGGGgtaagttcat ... catgatccagTGACATTGATCATCATGTAAGCACAAAAGAACAGATCACCTTGCAAGACAA
EST: gi|88381570|gb|CI682231.1|CI682231
EST:     GAGACATTCCATCTGGATGATTTTGAATTACCGGAGGCTGCATTTCAGGG                         TGACATTGATCATCATGTAAGCACAAAAGAACAGATCACC
genomic: GAGACATTCCATCTGGATGATTTTGAATTACCGGAGGCTGCATTTCAGGGgtaagttcat ... catgatccagTGACATTGATCATCATGTAAGCACAAAAGAACAGATCACC
EST: gi|29678404|gb|CB674679.1|CB674679
EST:     GAGACATTCCATCTGGATGATTTTGAATTACCGGAGGCTGCATTTCAGGG                         TGACATTGATCATCATGTAAGCACAAAAGAACAGATCACCTTGCAAGACAA
genomic: GAGACATTCCATCTGGATGATTTTGAATTACCGGAGGCTGCATTTCAGGGgtaagttcat ... catgatccagTGACATTGATCATCATGTAAGCACAAAAGAACAGATCACCTTGCAAGACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttatttaaaatgtgcccttcaactctcttaagattttccaccatgatccagTGACATTGATCATCATGTAAGCACAAAAGAACAGATCACCTTGCAAGACAACCCAGAGAAAACTGGATACTCAACATCCCAATTTGGCTTAGATG
                                     ttttccacc  CT-rich tract
     tatttaaaatgt  TA-rich tract