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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAATCTTGCCAGAGGTAAAAGATTGGCACTGTTCCTTGATTATGATGGAACTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgtattctttttctcctcttatgttctttagtcctcattattatcagtgaaaatttatctggcagttttgtaaatattctattcgacag

Basic information

species Oryza sativa
transcript LOC_Os10g40555.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g40555.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G178546_T01 (Zea mays), 5'ss of exon 3
TAATCTTGCCAGAGGTAAAAGATTGGCACTGTTCCTTGATTATGATGGAACTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgtattctttttctcctcttatgttctttagtcctcattattatcagtgaaaatttatctggcagttttgtaaatattctattcgacag
| |||||||  |  ||||||| |||||| |||| ||||| ||||| ||||| ||||||||||||||||||||||||||||||||| |||||||||| |||||||  |||       | || || ||||     | |  | |  ||||| || || |  | ||   ||| |||| ||| ||||| ||||
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttc------cctaagtccttttaaaattagcagt-ccagtgcaatttcagttcgc---tttctaaacattgtattc-acag

upper sequence: LOC_Os10g40555.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G178546_T02 (Zea mays), 5'ss of exon 3
TAATCTTGCCAGAGGTAAAAGATTGGCACTGTTCCTTGATTATGATGGAACTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgtattctttttctcctcttatgttctttagtcctcattattatcagtgaaaatttatctggcagttttgtaaatattctattcgacag-------------
| |||||||  |  ||||||| |||||| |||| ||||| ||||| ||||| ||||||||||||||||||||||||||||||||| |||||||||| |||||||  |||       | || || ||||     | |  | |  ||||| || || |  | ||   ||| |||| ||| ||||| ||||             
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttc------cctaagtccttttaaaattagcagt-ccagtgcaatttcagttcgc---tttctaaacattgtattc-acagatgcgtgctgcag

upper sequence: LOC_Os10g40555.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA04G13880.1 (Glycine max), 5'ss of exon 3
TAATCTTGCCAGAGGTAAAAGATTGGCACTGTTCCTTGATTATGATGGAACTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgtattctttttctcctcttatgttctttagtcctcattattatcagtgaaa-atttatctggcagttttgtaaatattct-attcgacag--------------
 ||   ||| | ||| || ||| | ||| |||| || ||||||||||| ||||||||||| |||||||| ||||||||   |||  | ||||| ||| | ||||     |  | ||||  | |  ||||||   ||  ||| ||||| | |  ||| |||     | ||||   | | || ||  |||                
CAACTGTGCAAAAGGGAAGAGAATAGCATTGTTTCTGGATTATGATGGGACTCTTTCACCCATTGTGGATAATCCTGACTCTGCTTTCATGTCAGACAATgtatg----taatgctctcttttgatttagtgtccag-attttcagttagatgtttttcttctcatgttgttgctttgctgatctgaccctgaaacttctgcag

upper sequence: LOC_Os10g40555.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA06G47630.2 (Glycine max), 5'ss of exon 2
TAATCTTGCCAGAGGTAAAAGATTGGCACTGTTCCTTGATTATGATGGAACTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgtattctttttctcctcttatgttctttagtcctcattatta--tcagtgaaaat-ttatctggcagttttgtaaatattctattcgacag----------
 ||   ||| | ||| || ||| | ||| |||| || ||||||||||||||||||||||| |||||||||||||||||   |||  | ||||| ||| | ||||   |  |    |||| || | |   ||||  ||| | |  |  |||    | || ||| |   ||   |  ||  |||  ||   |           
CAACTGTGCAAAAGGAAAGAGAATAGCATTGTTTCTGGATTATGATGGAACTCTTTCACCCATTGTGGACAATCCTGACTGTGCTTTCATGTCAGACAATgtatg--taatgctgtcttttgatttagtgtccagattttcaattaggtgtttttcttctcttgttattaccttgatgatctgatcctgaaacttctgcag

upper sequence: LOC_Os10g40555.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA12G00790.1 (Glycine max), 5'ss of exon 3
TAATCTTGCCAGAGGTAAAAGATTGGCACTGTTCCTTGATTATGATGGAACTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgtattctttttctcctcttatgttctttagtcctcattattatcagtgaaaatttatctggcagttttgt------aaatat--tctattcgacag-----
 ||   ||| | ||| |||||| | || |||||  | ||||||||||||||||||||||| |||||||| ||||||||   |||  | ||||| ||| | ||||  |  | |||  |||  |||   ||  | | |     ||  |     |||  | |  || |||| |      || ||   ||   || |||      
GAACTATGCAAAAGGGAAAAGAATTGCGCTGTTTATGGATTATGATGGAACTCTTTCACCAATTGTGGATAATCCTGACTGTGCTTTCATGTCCGACAATgtatg-tggtactctccttgggtttactatccataacatcaattgggttttattcttttctcatttttctttggctaattacaatcctgtcaacactgtag

upper sequence: LOC_Os10g40555.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA09G36570.1 (Glycine max), 5'ss of exon 3
TAATCTTGCCAGAGGTAAAAGATTGGCACTGTTCCTTGATTATGATGGAACTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgtattctttttctcctcttatgttctttagtcctcattattatcagtgaaaatttatctggcagttttgtaaatattctattcgacag-------------------
 ||   ||| | ||| |||||| | ||  ||||  | |||||||||||||||||||||||||||||||| ||||||||   |||  | ||||| ||| | ||||  |  | |||  |||  |||   || |||  | ||  |||| |     |||||     | | |  |   | ||    |    |                    
AAACTATGCAAAAGGGAAAAGAATTGCGTTGTTTATGGATTATGATGGAACTCTTTCACCGATTGTGGATAATCCTGACTGTGCTTTCATGTCCGACAATgtatg-tggtactctccttgggtttacta-tccataataacatcaattgggttttattc--tattctcatttttctttggctaattacaattctgttaactctgcag

upper sequence: LOC_Os10g40555.1 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S32_182V6.1 (Physcomitrella patens), 5'ss of exon 3
TAATCTTGCCAGAGGTAAAAGATTGGCACTGTTCCTTGATTATGATGGAACTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgt--attctttttctcctcttatgttctttagtcctcat--tattatcagtgaaaatt------tatctggcagttttgtaaatattc-tattcgacag--
 || |   |       ||   | | |   | |||||||||||||| ||||| |||||||| ||||||||  ||||||||   ||  | ||||| | ||||||   | | ||||    | || ||||      |    |   || ||     |   |||      || | ||  | ||| ||||| ||| |||||   |   
CAAGCAGTCGCACAACAAGCAAATCGTGGTATTCCTTGATTATGACGGAACACTTTCACCCATTGTGGAGGATCCTGAACGGGCTTTCATGTCAGCCGAGgtcagtacatttttaagtattttgttaagcgatggaaagggtagtactgacggccattcagtgatacccggt-gctttttaaatgttcatattcagtaaat

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|58607388|gb|CK035421.1|CK035421
EST:     CTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAG                         ATGCGCTCTGCTGTGAAGCATGTGGCGGGACTTTTTCCCACTGCGATCATT
genomic: CTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgtattctttt ... tattcgacagATGCGCTCTGCTGTGAAGCATGTGGCATCACTTTTTCCCACTGCGATCATT