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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTAAAACCAACATTAGATTTCATGTTGGGGATGTCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAGgtgggcctgcactgtctgctctgctgttttgcctttcatattagttttgacttagtttcttgtgtttctatctatgattctatcactctgtttttgctaa...

Basic information

species Glycine max
transcript GLYMA20G36090.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36090.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os09g32440.1 (Oryza sativa), 5'ss of exon 5
GGTTAAAACCAACATTAGATTTCATGTTGGGGATGTCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAGgtggg-cctgcactgtctgctctgctgttttgcctttcatattagttttgactta----gtttcttgtgtttct--atctatgattctatcactctgtttttg-ctaa-----------------------------------------------
||  | ||  | | |||      ||||||| ||||| ||||  || ||||| |||||||| |||||||||||||| |||||||||||    |||| | |   | |     ||| | | | || || |     |||  | |    |    |||   |  |   ||  |  || |||||   ||  |  | ||||                                               
GGCAAGAAAGAGCCTTAAGCCATATGTTGGTGATGTGGAAGCTGCTGCAGTGCCATGTGGTTTTGGACGTGCTATCGGCAATAAGgtacatcctgaagtcgtttcatatatgtgtaggcattaatttcctcgttggatgatgccgcacattgcagtcgttagtcagtttttatatcatggtgcatgcgtctaagttataatcttcagttgtctgtgtgatgacaatagatacttctgcag

upper sequence: GLYMA20G36090.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os08g41270.2 (Oryza sativa), 5'ss of exon 6
GGTTAAAACCAACATTAGATTTCATGTTGGGGATGTCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAGgtgggc-----ctgcactgtctgctctgctgttttgccttt--catattagttttg-act-tagtttcttgtgtttctatctatgattctatcactctgtttttgctaa
||  |  |   || |||     |||||||| ||||| || |  || ||||| |||||||||||||| |||||||||||||| |||||             | ||| |  |   ||||||   |||   | ||| |  | || ||| ||    || |   ||   |  | |     | || | |  |        
GGCAAGGAAGGACCTTAAGCCACATGTTGGTGATGTTGATGCTGCTGCAGTACCATGTGGCTTTGGGCGTGCTATTGGCAACAAGgtacatgattgtcaaaatgtttatta-actgtttgttcttgagcgtatcatatgtgcactataccaactgggaatttcgttcacgcaaagaacattatact--------

upper sequence: GLYMA20G36090.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G318949_T01 (Zea mays), 5'ss of exon 4
GGTTAAAACCAACATTAGATTTCATGTTGGGGATGTCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAGgtgggcctgcactgtctgctctgctgttttgcctttcatattagttttgacttagtttcttgtgtttctatctatgattctatcactctgtttttgctaa
||  |  |   || ||||    |||||||| ||||| || |   | ||||| |||||||||||||| |||||||||||||| |||||  ||    | | |||     ||   ||  | |||  | ||   | |||   ||                                             
GGCAACGAATGACCTTAGGCCACATGTTGGTGATGTTGATGCTACTGCAGTGCCATGTGGCTTTGGGCGTGCTATTGGCAACAAGgtaagcg---attatctag---gcatcttcactttttttgtt---tctgatgaag---------------------------------------------

upper sequence: GLYMA20G36090.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G065225_T01 (Zea mays), 5'ss of exon 5
GGTTAAAACCAACATTAGATTTCATGTTGGGGATGTCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAGgtgggcctgcactgtctgctctgctgttttgcctttcatattagttttgacttagtttcttgtgtttctatctatgatt------ctatcactctgtttttgctaa--
||  |  |   || ||||    |||||||| ||||| ||    || ||||| |||||||||||||| |||||||||||||| |||||  |     | | |||     ||   ||  | | |  | ||  || |||   || | |  |   | | |||| ||||       ||| ||||  |  |   |||   
GGCAACGAATGACCTTAGGCCACATGTTGGTGATGTTGATACTGCTGCAGTGCCATGTGGCTTTGGGCGTGCTATTGGCAACAAGgtaagtg---attatctag---gcatcttcacttgtttttttgtttctgatgaaggtaccagg--taccatctgtgatctgtgtactaccactaggcatcgcctagcc

upper sequence: GLYMA20G36090.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G422045_T01 (Zea mays), 5'ss of exon 5
GGTTAAAACCAACATTAGATTTCATGTTGGGGATGTCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAGgtgg--gcctgcactgtctgctctgctgt--tttgcctttcatattagttttgacttagtt-tcttgtgtttctatctatgattctatcactctgtttttgctaa
||  | ||  | | | | |    ||||||| ||||| ||||  || ||||| || |||||  |||||||||||||||||||||||||    |     |  |  |     ||| |  |   ||   |   | |||||| | || ||  |  | || |  ||| |    ||       ||||| | |     
GGCAAGAAAGAGCCTAAAACCATATGTTGGAGATGTTGAAGCTGCTGCAGTGCCGTGTGGTCTTGGACGTGCTATTGGCAATAAGgtacatgataaaataggattacacgctttcatcccccccccccctgagttttcattttgtaatggtatgatcttatgtccttttggggatatctgtatgt-----

upper sequence: GLYMA20G36090.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G423567_T01 (Zea mays), 5'ss of exon 5
GGTTAAAACCAACATTAGATTTCATGTTGGGGATGTCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAGgtgggcctgcactgtctgctctgctgttttgcctttcatattagttttgacttagtttcttgtgtttctatctatgattctatcactctgtttttgctaa------
||  | ||  | | ||| |    ||||||| ||||| ||||  || ||||| || |||||  |||||||||||||||||||||||||   | ||        ||| | |     ||| ||    |    |     | ||      ||  |||  | | |  |   |||     | |  |  | ||      
GGCAAGAAAGAGCCTTAAACCATATGTTGGAGATGTTGAAGCTGCTGCAGTGCCGTGTGGTCTTGGACGTGCTATTGGCAATAAGgta--catgataaaatagctgtaca----tgctttcatcacccctcccctcctaaaaaaatgatttttcaacaacaacaatatagacttttagtcccaaacgagtt

upper sequence: GLYMA20G36090.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv00s0220g00160.t01 (Vitis vinifera), 5'ss of exon 4
GGTTAAAACCAACATTAGATTTCATGTTGGGGATGTCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAGgtgggcc-tgcactgtctgctctgctgttttgcctttcatattagttt-tgacttagtttcttgtgtttctatctatgattctatcactctgtttttgctaa
||||| ||  || || |||  ||||||||| ||||| || |  ||||||||||||||||| ||||| ||||| || || ||||||||  ||  | || |   |   |   | ||   |  |  |    |||   |||   |  |  ||| |||   | |||  ||| |  || | || |       |
GGTTAGAAATAATATCAGAGCTCATGTTGGAGATGTTGATGCTGCAGCAGTTCCATGTGGATTTGGGCGTGCAATCGGTAATAAGgtatgctgtccatttcataaacaagttttcatctgtctactaaagtaaatgatggaaatctttgggttcagaacta--attgttgcaatgtgatggattcca

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|7692411|gb|AW760518.1|AW760518
EST:     TCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAG                         GGAGCTGTTGGTTTGAGAATTAGAGTGTATGATCGGATAATGTGCTTTGTT
genomic: TCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAGgtgggcctgc ... gtttcaccagGGAGCTGTTGGTTTGAGAATTAGAGTGTATGATCGGATAATGTGCTTTGTT