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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTCATTCAAGGAACAACTTCAGCAGCATGTGCGTGTTCATGCAATGGAAGCAGTGATGGGGTGCTGGGAACTTGAACAGTCTTTACAAAGTCTAACAGgtagaccaaagcttctatctgcttgaatcagttcagcaaatggtagaaaatttcaaacatacactttttttttgttatttcattgataatattcaggcaa...

Basic information

species Oryza sativa
transcript LOC_Os02g08544.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g08544.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G370332_T01 (Zea mays), 5'ss of exon 2
TGCTCATTCAAGGAACAACTTCAGCAGCATGTGCGTGTTCATGCAATGGAAGCAGTGATGGGGTGCTGGGAACTTGAACAGTCTTTACAAAGTCTAACAGgtagaccaaagcttctatctg--cttgaatcagttcagcaa-atggtagaaaatttcaaacatacacttttt--ttttgttatttcattgataatattcaggcaa
|||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||| |||||||| |||||||| ||||||||||| ||||||||||||        | | | |   ||||  | | ||||| ||  ||   |||  ||||| | |||||    ||  |||| | |||||| | ||   |  |      
TGCTCATTCAAGGAACAACTCCAGCAGCATGTACGTGTTCATGCAATGGAAGCAGTGATGGGTTGCTGGGAGCTTGAACAATCTTTACAAAGCCTAACAGgtagattgttttctttttttaatcttgtgttaattcagaaacgtgcctgaagctttcagatatacatcacttgcttttatcatttcaataattgcagcct-----

upper sequence: LOC_Os02g08544.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G433591_T02 (Zea mays), 5'ss of exon 3
TGCTCATTCAAGGAACAACTTCAGCAGCATGTGCGTGTTCATGCAATGGAAGCAGTGATGGGGTGCTGGGAACTTGAACAGTCTTTACAAAGTCTAACAGgtagaccaaagcttctatctgcttgaatcagttcagcaaat-ggtagaaaatttcaaacatacactttttttttgttatttcattgataatattcaggcaa
||||||||||||||||| || ||||||||||| ||||||||||||||||||||||||||||| |||||||| |||||||| || |||||||| ||||||||| ||       || ||  | || |  | | ||||| || | ||  |||  ||||| | |||||||  ||  || |    |||||   |  |||   ||| 
TGCTCATTCAAGGAACAGCTGCAGCAGCATGTACGTGTTCATGCAATGGAAGCAGTGATGGGTTGCTGGGAGCTTGAACAATCCTTACAAAGCCTAACAGgtggattgttttttttaaat-ctcgcgttaattcagaaacttggctgaagctttcatatatacactacttgcttttatcatcatttcaataattgtagcat

upper sequence: LOC_Os02g08544.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA06G06890.1 (Glycine max), 5'ss of exon 2
TGCTCATTCAAGGAACAACTTCAGCAGCATGTGCGTGTTCATGCAATGGAAGCAGTGATGGGGTGCTGGGAACTTGAACAGTCTTTACAAAGTCTAACAGgtagaccaaagcttctatc--tgcttgaatcagttcagcaaatggtagaaaatttcaaacatacactttttttttgttatttcattgataatattcaggcaa
|| || ||||| ||||||||||| |||||||| || || ||||||||||||||||| ||||  || |||||  | || || || ||||||||| ||||||||| | | |   |  | |   || ||    ||  ||| || |    | ||| |   |||  |    |    ||   | ||   || || |  | |       
TGTTCTTTCAAAGAACAACTTCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTCATGGCTTGTTGGGAGATCGAGCAATCCTTACAAAGTTTAACAGgtacaacgatagtctttttagtgatttttgcatctcaacataaaa-ataaactaataaaggttagttgcccttccatgataaaatggaaataacttgattc-

upper sequence: LOC_Os02g08544.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA04G06810.1 (Glycine max), 5'ss of exon 3
TGCTCATTCAAGGAACAACTTCAGCAGCATGTGCGTGTTCATGCAATGGAAGCAGTGATGGGGTGCTGGGAACTTGAACAGTCTTTACAAAGTCTAACAGgtagaccaaagcttctatctgcttgaatcagttcagcaaatggtagaaaatttcaaacatacactttttttttgttatttcattgataatattcaggcaa---
|| || ||||| ||||||||||| |||||||| || || ||||||||||||||||| ||||  || |||||  |||| || || ||||||||| ||||||||| | | |   |  | |  |     ||   | || |  |   || |||    | || | |   |  ||   || ||        || |    |||  ||   
TGTTCTTTCAAAGAACAACTTCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTCATGGCTTGTTGGGAGATTGAGCAATCCTTACAAAGTTTAACAGgtacagcgatattctttttagt---gattgttacatctcaacataaaaataaaccaataaaggttggttacatgataaaatggaaatcagtaccagaaaatga

upper sequence: LOC_Os02g08544.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA14G13750.2 (Glycine max), 5'ss of exon 2
TGCTCATTCAAGGAACAACTTCAGCAGCATGTGCGTGTTCATGCAATGGAAGCAGTGATGGGGTGCTGGGAACTTGAACAGTCTTTACAAAGTCTAACAGgtagaccaaagcttctatctgcttgaatcagttcagcaaatggtagaaaatttcaaacatacactttttttttgt-tatttcattgataatattcaggcaa---
|| || ||||| |||||| | ||||||||||| || || ||||||||||||||||| ||||  || |||||  | || || || || || ||||||||||||  |  ||||  |||   |     |||    ||| |  |    | | || |   || ||    |   |  |||  |     ||||| ||||    |       
TGTTCCTTCAAAGAACAATTGCAGCAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGATATAGAGCAATCATTGCAGAGTCTAACAGgtgcataaaagtgtcttcttttagtaattgtctcatctta----aaataaatgtgaagatttgttgcgtgattgaatgaaaaattgaaaataggatgtttcaca

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|2312070|gb|C28225.1|C28225
EST:     AGCAGTNATGGGGTGCTGGGAACTTGAACAGTCTTTACAAAGTCTAACAG                         GGGCATCTCCTGGTGAAGGGACTGGAGCGACTATGTCTGATGATGAAGATA
genomic: AGCAGTGATGGGGTGCTGGGAACTTGAACAGTCTTTACAAAGTCTAACAGgtagaccaaa ... ggttctgcagGGGCATCTCCTGGTGAAGGGACTGGAGCGACTATGTCTGATGATGAAGATA
EST: gi|88302049|gb|CI667895.1|CI667895
EST:     GGGGTGCTGGGAACTTGAACAGTCTTTACCAAGCTCTAACAG                         GGGCATCTCCTGGTGAAGGGACTGGAGCGACTATGTCTGATGATGAAGAT
genomic: GGGGTGCTGGGAACTTGAACAGTCTTTACAAAG-TCTAACAGgtagaccaaa ... ggttctgcagGGGCATCTCCTGGTGAAGGGACTGGAGCGACTATGTCTGATGATGAAGAT