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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcattgtgacagtttaatttttatttatttgtacttttttttggtgcggtgctgattgatcatctttgttattcattgacag

Basic information

species Oryza sativa
transcript LOC_Os11g40510.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G008611_T01 (Zea mays), 5'ss of exon 8
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcattgtgacagtttaatttttatttatttgtacttt---tttttggtgcggtgctgattgatcatctt----tgttattcattgacag
||||||||| || |||||||| |||||||| |||||||||||||| |||||||||||||||||||| || |||||||||||||||   |     |  |   ||| |  |||  | |  |    |||||| ||  ||||| || |||   ||      |||||| || ||||
AGATGCTAGTGTTATGTGGGACCAGAAAACAGGACGATCCAGAGGATTTGGTTTTGTTTCTTTCAGGAACCAGCAGgtagtgtcaccattttt-taaaccctttgtgcattgttgccatgaacttttggagc--tgctgtttcatctcgttatgtcattattccttaacag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G008611_T02 (Zea mays), 5'ss of exon 8
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcattgtgacagtttaatttttatttatttgtacttt---tttttggtgcggtgctgattgatcatctt----tgttattcattgacag--------
||||||||| || |||||||| |||||||| |||||||||||||| |||||||||||||||||||| || |||||||||||||||   |     |  |   ||| |  |||  | |  |    |||||| ||  ||||| || |||   ||      |||||| || ||||        
AGATGCTAGTGTTATGTGGGACCAGAAAACAGGACGATCCAGAGGATTTGGTTTTGTTTCTTTCAGGAACCAGCAGgtagtgtcaccattttt-taaaccctttgtgcattgttgccatgaacttttggagc--tgctgtttcatctcgttatgtcattattccttaacaggatgctca

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM5G835213_T01 (Zea mays), 5'ss of exon 8
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcattgtgacagtttaatttttatttatttgtacttt---tttttggtgcggtgctgattgatcatctt----tgttattcattgacag
|||||||||||| |||||||| |||||||| |||||||||||||| |||||||||||||||||||| || ||||||||||||||    | |   |  |   ||| |  |||  | |  |    |||||| ||  ||||| || |||   ||      |||||| || ||||
AGATGCTAGGGTTATGTGGGACCAGAAAACAGGACGATCCAGAGGGTTTGGTTTTGTTTCTTTCAGGAACCAGCAGgtagtgtcgccattatt-taaaccctttgtgcattgttgccatgaacttttggagc--tgctgtttcatctcgttatgtcattattccttaacag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA16G01230.1 (Glycine max), 5'ss of exon 7
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgt---agtgtcattgtgacagtttaatttttatttatttgtacttttttttggtgcggtgctgattgatcatctttgttattcattgacag
|||||||||||| |||||||||||||| ||||| || || || || ||||| |||||||| ||| | ||||| |||||   | | |  || |   |  |||||||||  |   |   |    | |||  |  |||  ||| | |  || ||| ||     ||   ||
AGATGCTAGGGTTATGTGGGATCAGAAGACTGGGCGTTCAAGGGGATTTGGATTTGTTTCATTCCGTAATCAACAGgtccaaatttggttttataatcttaatttttggt--gtgacaaggctctttattatggttttgacttag-atttttcttgaatttttgtag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA17G05530.1 (Glycine max), 5'ss of exon 7
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcattgtgacagtttaatttt-tatttatttgtacttttttttggtgcggtgctgattgatcatctttgttattcattgacag
 ||||| |||||||||||||||||||| || || || ||||| || ||||| |||||||||||  | |||||||||| | ||  || || ||  || | ||    |||||||  |||   |||| ||||   | |    | ||  |                   
TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGgtttgtttcttttcggaatcagcaggca-tgaaatagtcac--ttcatttccacatttattcttacagctttt-ggtgttttccattctaatggtag-----------------

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA17G05530.4 (Glycine max), 5'ss of exon 8
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgta--gtgtcattgtgacagtttaatttttatttat-----ttgtacttttttttggtgcggtgct--gattgatcatctttgttattca--ttgacag
 ||||| |||||||||||||||||||| || || || ||||| || ||||| |||||||||||  | |||||||||| |     |  |     || ||  |  ||||||  |     || |  | ||||    |    || |  |||   |    | ||| |||||  ||  |||
TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGGTTTGTTTCTTTTCGGAATCAGCAGgcatgaaatagtcacttcatttccacatttattcttacagcttttggtgttttccattctaatggtaggatgttttggttctgtgattcaatttatcag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA13G17200.2 (Glycine max), 5'ss of exon 7
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgta--gtgtcattgtgacagtttaatttttatttatttgtacttttt------tttggtg----cggtgctgattgatcat--ctttgttattcattgacag----------
 ||||| |||||||||||||||||||| || || || ||||| || ||||| |||||||||||  | |||||||||| |     || |     || ||  |  ||||||   ||| |  ||||      ||| |||    |  | || ||| ||||     || |  |||  |||             
TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGATTTGTTTCTTTTCGGAATCAGCAGgcatgaaatcgtcacttcatttctacatttattctcttgcagattttggtgttttttgtgttttccattctaatttatcaggatgttttggttctgtgattcaatttatcag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G54080.1 (Arabidopsis thaliana), 5'ss of exon 7
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgta--gtgtcattgtgacagt---ttaatttttatttatttgtacttttttttggtgcggtgctgattgatcatctttgttattcattgacag
 || || || ||||||||||| |||||||||||||| || ||||| |||||||||||||| ||| | |||||||||||    | || || | |   |   | | ||||| ||||  |  | |  || ||  | |  || |  || |   | | ||| |||    |    
GGACGCAAGAGTAATGTGGGACCAGAAAACTGGACGCTCAAGAGGCTTTGGTTTTGTTTCCTTCCGTAATCAGCAGgttttatatccttttaatcatgagtgactttttttttagctccattcattgtt--tacattgatttttaaatgtttctgtaatttgcag----

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G54080.2 (Arabidopsis thaliana), 5'ss of exon 7
------------AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgta--gtgtcattgtgacagt---ttaatttttatttatttgtacttttttttggtgcggtgctgattgatcatctttgttattcattgacag
             || || || ||||||||||| |||||||||||||| || ||||| |||||||||||||| ||| | |||||||||||    | || || | |   |   | | ||||| ||||  |  | |  || ||  | |  || |  || |   | | ||| |||    |    
TTCTTATTATAGGGACGCAAGAGTAATGTGGGACCAGAAAACTGGACGCTCAAGAGGCTTTGGTTTTGTTTCCTTCCGTAATCAGCAGgttttatatccttttaatcatgagtgactttttttttagctccattcattgtt--tacattgatttttaaatgtttctgtaatttgcag----

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G17370.1 (Arabidopsis thaliana), 5'ss of exon 7
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcattgtgacagttt-aatttttatttatttgt--acttttttttggtgcggtgct-gattgat-catctttgttattcattgacag
 ||||| || || |||||||||||||||||||| || || ||||| ||||| |||||||| ||| | || || |||||| | | | |||   | | | | |  || | |||   |   |||||  ||    |  || | ||||| | ||  | |  | | | |   |||
GGATGCAAGAGTTATGTGGGATCAGAAAACTGGGCGTTCAAGAGGATTTGGATTTGTTTCCTTCCGTAACCAACAGgtact-tgactgtctaactctcagtccttgtgtatagattggcttttactttaaacactgatcgattgctgcaaatcttatttccttatgcag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 7
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcattgtgacagtttaattt---ttatttatttgtacttttttttggtgcggtgctgattgatcatctttgttattcattgacag
|||||||||||| |||||||||||||||||||| || || || |||||||| |||||||||||| | || ||||||||| ||  || |    | || | |||   || ||  |||  | ||||  |   |   ||  |||||     || || |   |  ||  |||
AGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAGgtaatgaaatggctttacttgattttgttttgttccttttcatttttcctcattcatgttatgatt--ctgtcattttatcttgtttccag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv09s0002g00880.t01 (Vitis vinifera), 5'ss of exon 7
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat--tgtgacagtttaatttttatttatttgtacttttt-tttggtgcggtgctgattgatcatctttgttattcattga-cag
|||||| ||||| |||||||||||||| ||||| || || ||||| ||||| |||||||||||| | ||||| |||||  | |  |  | |||   || ||||||| |||      |  | || |||  |    |  |  |  |  || |||  | |   |||  |||
AGATGCGAGGGTTATGTGGGATCAGAAGACTGGGCGTTCAAGAGGGTTTGGATTTGTTTCTTTCCGCAATCAACAGgttcttttttcttttgatttttcaatttttttttccagacagatattgtttcttctaataattttctacaatattttatttcttttgttcag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: PP1S84_51V6.1 (Physcomitrella patens), 5'ss of exon 7
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat---tgtgacagtttaatttttatttatttgtacttttttttggtgcggtgctgattgatcatc--tttgttattcattgacag-------
||||||  | || |||||||||||     | || || || || ||||| || |||||||||||||||| |||||||||||  |||    |||     |  |       ||||    || |    |  |    |||  ||  ||  |  |  |  ||   | | |  | |       
AGATGCACGAGTTATGTGGGATCAACGCTCAGGTCGCTCTAGGGGTTTCGGCTTTGTTTCTTTCAGAAGTCAGCAGgtaggttcaggcatgtttacttccagggcggctttaagaatattcaggtaggccttggtaatggatgggctcccatccgtacctgagtagctgtttcacg

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 7
lower sequence: PP1S84_50V6.2 (Physcomitrella patens), 5'ss of exon 8
AGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat-tgtgacagtttaatttttatttatttgtacttttttttggtg--cggtgctgattgatcatctttgttattcattgacag---------
||||||  | || |||||||||||     | || || || |||||||| || |||||||||||||||| |||||||||||  |||         | |||    |  | |    ||   ||      ||   | |||   | || || | ||  || |  | |              
AGATGCACGAGTTATGTGGGATCAACGCTCAGGTCGTTCTAGAGGTTTCGGCTTTGTTTCTTTCAGAAGTCAGCAGgtaggttcaggcacttttgcttatagatcgtcttcaagtggattcaggcagtatccagtggaaaatggtctttttatttgtgtagtagtttagagcttga

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|58688359|gb|CK077046.1|CK077046
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|58687280|gb|CK075967.1|CK075967
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|87006051|gb|CI289468.1|CI289468
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|58602505|gb|CK013033.1|CK013033
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|33680119|gb|CF308358.1|CF308358
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|88572117|gb|CI663688.1|CI663688
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|218497207|gb|FG946437.1|FG946437
EST:     TTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: TTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|86905007|gb|CI289154.1|CI289154
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|88321854|gb|CI672999.1|CI672999
EST:     AAACTGGACGATCCACAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|58678674|gb|CK067361.1|CK067361
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|58690866|gb|CK079553.1|CK079553
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|87022688|gb|CI293578.1|CI293578
EST:     AAACTGGACGATCCAGAGGTTTNGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATGGGAAG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATGGGAAG
EST: gi|58694246|gb|CK082933.1|CK082933
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|25797088|gb|CA753049.1|CA753049
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|218500911|gb|FG960833.1|FG960833
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|58597389|gb|CK007917.1|CK007917
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|325494350|gb|JG458874.1|JG458874
EST:     GAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: GAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|58606512|gb|CK034545.1|CK034545
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|58601763|gb|CK012291.1|CK012291
EST:     AAACTGGACGATCCAGAGGTTTAGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|86596642|gb|CI286555.1|CI286555
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG
EST: gi|87004665|gb|CI300987.1|CI300987
EST:     AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG                         GACGCACAAAATGCCATAAATGAACTGAATG
genomic: AAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAGgtagtgtcat ... tcattgacagGACGCACAAAATGCCATAAATGAACTGAATG