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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGTTTGAGAGGAGCTTCTTGATTAAATTTCCAGCTTGCTCTGTTGCTGCAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttactgaggatttaatctttcatgatgcttttctttgtgcaacttgacagttgatgagtgctactttcatacctatgtttcatag

Basic information

species Zea mays
transcript GRMZM2G171354_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171354_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g04020.1 (Oryza sativa), 5'ss of exon 5
GGAGTTTGAGAGGAGCTTCTTGATTAAATTTCCAGCTTGCTCTGTTGCTGCAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttactgaggatttaatctttca--tgat-gcttttctttgtgcaacttgacagtt-gatgagtgctactttcatacctatgtttcatag
||| |||||  ||||||||||||| || || ||||| |||||| ||||||||||||||||||||||||| |||||||||||||| ||||| ||||| |||||||| | |||| | ||||||||      ||||   | ||  || |    |||  || |  |    |||||| ||    || |   |||||   
GGAATTTGAACGGAGCTTCTTGATCAAGTTCCCAGCATGCTCTCTTGCTGCAAAAAGGCACATTGATTCGAGCACAACAATTCTTGATGTTCAGGGTGTGgtatgctgctgaagctttaatctccagactgattattctttcttttttttcttttcactcaggcatgtgctaattgagcacattcttttcag--

upper sequence: GRMZM2G171354_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 4
GGAGTTTGAGAGGAGCTTCTTGATTAAATTTCCAGCTTGCTCTGTTGCTGCAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttactgaggatttaatctttcatgatgcttttctttgtgcaact-tgacagttgatgagtgctactttcatacctatgtttcatag
|||||||||||     ||   ||| || ||||| |||||| |  |||| || ||||||||||||||||| ||||| || || || ||||| || ||||||||||||| | |   |||   |   ||||  | | |  || ||     || ||||| | ||  | |  |  | |  |  | |  |||     
GGAGTTTGAGAAAGCTTTTAAGATAAAGTTTCCTGCTTGCACGATTGCCGCCAAAAGGCACATTGATTCAAGCACCACGATACTAGATGTTCAAGGCGTGgtatgttgccgttaatt--gttcctcattgtacgtgcctgtggattcctgtgaca-tggaaaatttatgttgtagtttcaacttttag---

upper sequence: GRMZM2G171354_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA04G01220.1 (Glycine max), 5'ss of exon 4
GGAGTTTGAGAGGAGCTTCTTGATTAAATTTCCAGCTTGCTCTGTTGCTGCAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttactgaggatttaatctttcatgat-gcttttctttgtgcaacttgacagttgatgagtgctactttcatacctatgtttcatag-------------
|||||||||||     ||    || || ||||| ||||||||| ||||||| || |||||||||||||||||||| |||||  | ||||| || || |||||||  |  |     | |||| ||||||  | || ||   |  || ||  | | ||||    |         | | |  | ||||  |||              
GGAGTTTGAGAAAGCTTTTGCAATCAAGTTTCCTGCTTGCTCTATTGCTGCCAAGAGGCACATTGATTCCAGCACCACAATCTTAGATGTTCACGGAGTGgtattatgttacc--tctaatttttcatctttgcgttgactactgtaaactaa-agttatataacatacaagtaacatttttgttgtataattgacatcatcag

upper sequence: GRMZM2G171354_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA06G01260.1 (Glycine max), 5'ss of exon 4
GGAGTTTGAGAGGAGCTTCTTGATTAAATTTCCAGCTTGCTCTGTTGCTGCAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttactgaggatttaatctttcatgat-gcttttctttgtgcaacttgacagttgatga-gtgctactttcatacc-tatgtttcatag------
|||||||||||     ||    || || ||||| ||||||||| ||||||| || |||||||||||||||||||| |||||  | ||||| || || |||||||  |  | |    | | | ||| ||  | || |||  |  || ||  | |   |  || |  | | |   |  |    |||| || | |       
GGAGTTTGAGAAAGCTTTTGCAATCAAGTTTCCTGCTTGCTCTATTGCTGCCAAGAGGCACATTGATTCCAGCACCACAATCTTAGATGTTCACGGAGTGgtattatgtt-acctctaatttttttatcttcgcatttactactgtaatctaaagttctataacatacaagacttttgttgtatgattgacattatcag

upper sequence: GRMZM2G171354_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT1G75370.1 (Arabidopsis thaliana), 5'ss of exon 4
GGAGTTTGAGAGGAGCTTCTTGATTAAATTTCCAGCTTGCTCTGTTGCTGCAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgta--tgttactgaggatt----taatctttcatgatgcttttctttgtgcaacttgacagttgatgagtgctactttcata-cctatgtttcatag
 ||||||||||  |   ||   || ||  ||||||||||||   ||||||| || || || ||||| || |||||||||||||| |||||||| |||||||||  | | |     ||||    || | |||| |  ||   |  ||  ||   | || ||  | || | |  || || | || | |||||||   ||
AGAGTTTGAGAAAACTGTCAACATAAAGCTTCCAGCTTGCTGCATTGCTGCTAAGAGACATATTGACTCTAGCACAACAATTCTAGATGTCCAAGGCGTGgtacttataaaaccagattctgttagtttttcctagtgtagtgtttattgt--cctg-catcttattacttataattgcttaacttatgttttgcag

upper sequence: GRMZM2G171354_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT2G21520.1 (Arabidopsis thaliana), 5'ss of exon 3
GGAGTTTGAGAGGAGCTTCTTGATTAAATTTCCAGCTTGCTCTGTTGCTGCAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttactgaggatttaatctttcatgatgcttttctttgtgcaacttgacagttgatgagtgc---tactttcatacctatgtttcatag
||||||||||||||||||  |||| || |||||  | ||| || || ||||||| ||||| |||||||| || ||||| ||||| ||||| || || |||||| || | |     ||  |   ||||||||  |  |  |      | ||      | ||| ||     ||  ||||||   |          
GGAGTTTGAGAGGAGCTTTATGATCAAGTTTCCTTCCTGCACTATTTCTGCAAAGAGGCATATTGATTCAAGTACAACTATTCTTGATGTTCAAGGAGTGgtaagt-att-----ttctacagttcatgatattagttgtgaaatgagtttttttctcatgtgtttatataacttcatattcag---------

upper sequence: GRMZM2G171354_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 5
GGAGTTTGAGAGGAGCTTCTTGATTAAATTTCCAGCTTGCTCTGTTGCTGCAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttactgaggatttaatctt--------tcatgatgcttttctttgtgcaacttgacagttgatgagtgctactttcatacctatgtttcatag------
|||||| ||||  |||||     | || |||||||| ||  || |||||||||| |||||||| |||||||||||||| ||| ||||||| || ||||||||||| |       ||||  ||||        |    |    | | || |  |||    |  ||| |    |     ||  ||  ||     |||         
GGAGTTCGAGAAAAGCTTTGCCCTAAAGTTTCCAGCCTGTACTATTGCTGCAAAGAGGCACATAGATTCCAGCACAACTATTTTGGATGTTCAAGGCGTGgtatgctttctgtaattttttcttggtcaccattgcaaaatatattttggcccaatcaaaatgtttaaacttatcttttctatttctgatcatcaattttccag

upper sequence: GRMZM2G171354_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv18s0001g12950.t01 (Vitis vinifera), 5'ss of exon 4
GGAGTTTGAGAGGAGCTTCTTGATTAAATTTCCAGCTTGCTCTGTTGCTGCAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttactgaggatttaatctt---tcatga-----tgcttttctttgt----gcaacttgacagttgatgagtgctactttcatacctatgtttcatag
||| ||||| | | | ||     |||| ||||| |||||||||||||| ||||| |||||||||||||| |  |||||| || | ||||| || |||||||||||||      | ||| || ||    ||  |     || |||   || |    | |  || ||| |       ||||  ||  |  | | | ||    ||
GGAATTTGAAAAGTGTTTTGCATTTAAGTTTCCTGCTTGCTCTGTTGCAGCAAAGAGGCACATTGATTCAAATACAACACTTTTAGATGTTCAAGGCGTGgtatgttttccttggttttatgttaatccaaaagtatatggtttggcttataggagtatgttcacattcctgctttgctctttgtaaccatttattgttcag

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|160481336|gb|EY254270.1|EY254270
EST:     AAAGGCATC-TTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTG                         GGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
genomic: AAAGGCA-CATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttact ... tgtttcatagGGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
EST: gi|32933167|gb|CF037979.1|CF037979
EST:     CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTG                         GGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCGGCGACTGCAG
genomic: CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttact ... tgtttcatagGGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
EST: gi|211297306|gb|FK975033.1|FK975033
EST:     CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTG                         GGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
genomic: CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttact ... tgtttcatagGGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
EST: gi|13178166|gb|BG349424.1|BG349424
EST:     CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTG                         GGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
genomic: CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttact ... tgtttcatagGGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
EST: gi|6564181|gb|AW231803.1|AW231803
EST:     CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTG                         GGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
genomic: CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttact ... tgtttcatagGGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
EST: gi|211297305|gb|FK975032.1|FK975032
EST:     CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTG                         GGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG
genomic: CAAAAAGGCACATTGATTCCAGCACAACAATTCTGGATGTCCAGGGCGTGgtatgttact ... tgtttcatagGGTTTGAAAAATTTCAGCAAAACTGCACGTGAATTAATTCAGCGACTGCAG