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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttccactgaggcacaagcgacagaacttttttcttgataacattgcttaatgtctaaggtattcttatgtttttag

Basic information

species Zea mays
transcript GRMZM2G171354_T03
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g04020.1 (Oryza sativa), 5'ss of exon 7
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttccactgaggcacaagcgacagaacttttttcttgataacattgcttaatgtctaaggtattcttatgtttttag--
 ||||| ||||||||||||||||||||||||||||| || |||||  ||||||||||||||||||||||||| || || ||||| ||  ||||||||||||||||| |  | |    |  |    ||   |  |||| | ||  ||   | |||| || |||||||| |  ||| ||| |    
CCTATATCAAATGTTTATTGTCAATGCTGGTCCGGGGTTTCGGCTCTTATGGAACACTGTGAAGTCCTTTCTGGACCCAAAAACCACTTCCAAGATACATgtaagtctttatt----cttactacacttcaacttttgcatgggaaagatacttagtgcctaaggtaattatatatttcttcag

upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA14G07850.1 (Glycine max), 5'ss of exon 6
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttccactgaggcacaagcgacagaacttttttcttgataacattgcttaatgtctaaggtattcttatgtttt-tag-------------------------------------------------------
  |||  | |||||||||  ||||||||||||| |||||   ||| || |||||||| ||||| || ||||||||||||||||||||  | |||||| ||||  ||  | | |        | |       |||| |  || | |   ||      | || |    ||  |||| ||||  ||                                                       
ATTATGTCGAATGTTTATAATCAATGCTGGTCCCGGTTTTAAGCTGCTTTGGAACACGGTGAAATCATTTCTTGATCCCAAAACTACTTCAAAGATAAATgtgcgtgccaatta---tttgatcttttattctttctgttttagagttttataggctttcaataaaataattatcttttacagtttacagagataatctgttggtatagtattgattgatacttcaatgttccattag

upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA04G01220.1 (Glycine max), 5'ss of exon 6
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttccactgaggca-caagcgacagaacttttttcttgataacattgcttaatgtctaaggtattcttatgtttttag---------------
||| | ||||||||||||| | |||||||| || || ||  ||||  | ||||||||||| ||||| ||||| ||||||||||| ||  | ||||| |||||| || |  |      |  | ||| |   ||   | |  || || |   |     |   || |       | ||| || |                 
TCTTTGCCAAATGTTTATTATAAATGCTGGGCCTGGATTTAGGCTGTTGTGGAACACTGTCAAGTCTTTTCTCGATCCCAAAACAACTTCTAAGATTCATgtatgtataaataccctcttctagctatttaatgatctgtttaatgatggtttaagactgctgaaactgcttgatgcttctttggaaacattactcag

upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 6
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtt----tccactgaggcacaagcgacagaacttttttcttgataac--attgct-----taatgtctaaggtattctt----atgtt-tttag
||| | ||||||||||||  | |||||||| ||||| ||  || | |||||||||||||| ||||| || |||||||||||||| ||  | ||||| |||||| ||     | |  |   | |   |||  ||  || ||||| ||||     || |||      ||||  |   |  |  ||    || ||  ||||
TCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaaatgctatattgtagctgcgttagg-ctcttttcatgatggtttatggctgctgacaatgcttggtgcctctttggaaatattgcttag

upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA06G03300.1 (Glycine max), 5'ss of exon 6
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttccactgag-gcacaagcgacagaactttttt----cttgataacattgcttaatgtctaaggtattcttatgtttttag-------------------------------------------
 || | ||||||||||||  | ||||||||||| |||||   | | || |||||||| |||||  | ||||||||||||||||||||  | ||||| |||||| ||    | |    |  | || | |   | ||||       |  ||   | |  |||   ||||  || ||  | ||    ||                                            
ACTCTGCCAAATGTTTATCATTAATGCTGGTCCTGGTTTTAAGATGCTCTGGAACACGGTGAAAACATTTCTTGATCCCAAAACTACTTCAAAGATTCATgtatgtgataattttttgagctagtgtctatagttttaaaggattccattgaagtaattaccttctatagttttggtgtggagataatttataggtataggattaatgtacttgaatgttgttccattag

upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA17G37150.1 (Glycine max), 5'ss of exon 6
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttccactgaggcacaagcgacagaacttttt----tcttgataacat-----tgcttaat-gtctaaggtattcttatgtttttag-----------------------------------
  |||  | |||||||||  ||||||||||||| |||||   ||| || |||||||| ||||| || ||||||||||||||||||||  | |||||| ||||| || || | |     |   |     ||  ||| |    | |  || | ||     |||||    || ||  |   |  | ||||  ||                                    
ATTATGTCGAATGTTTATAATCAATGCTGGTCCCGGTTTTAAGCTGCTTTGGAACACAGTGAAATCATTTCTTGATCCCAAAACTACTTCAAAGATAAATgtatgtgtcaattatttgatctgtttttgatttttataggctttcaatgaaataatcatgcttttcagtttacagagataatctgttggtatagtattaattaattgatacttcaatgttccattag

upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA04G03230.1 (Glycine max), 5'ss of exon 5
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagt-----ttccactgaggcacaagcgacagaacttttttcttg-ataacattgcttaatgtctaaggtattcttatgtttttag---------------------------------------------
 || | ||||||||||||  | ||||||||||| |||||   | |||| |||||||| |||||  | ||||||||||||||||||||  | ||||| |||||| ||     ||    ||||  |      | ||   | |    ||  ||   | |  |||   ||||  || ||     |    ||                                              
ACTCTGCCAAATGTTTATCATTAATGCTGGTCCTGGTTTTAAGATACTCTGGAACACGGTGAAAACATTTCTTGATCCCAAAACTACTTCAAAGATTCATgtatgtgttaatttttttgagttattgtttatagttttataggattccattgaagtaattaccttctatagttttggctcggagataatttataggtataggattaattgatacttgaatgttgtttcattag

upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: AT2G21520.1 (Arabidopsis thaliana), 5'ss of exon 5
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttccactgaggcacaa----gcgacagaacttttttcttgataacattgcttaatgtctaaggtattcttatgtttttag--
|||  |||||||||||||| ||||||| || || || ||  ||||||| ||||||||||| |||  ||||||||| || || ||  | || || || |||||| |      || ||  | |          | |   || |  ||||| | || |  |    | |    ||||||  ||||| |    
TCTCCACCAAATGTTTATTATCAATGCAGGGCCTGGATTTAGGCTACTCTGGAACACTGTCAAGAGCTTTCTTGACCCTAAGACATCTGCTAAAATTCATgtatgagagatctaagttatatctctatttaaaagtcttgtctttgattatatagaattcaatatggactattctattgtttatgtag

upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 7
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttccactgaggcacaagcgacagaacttttttcttgataacattgcttaatgtctaaggtattct-tatgtttttag--------------------------
||| | ||||||||||||| ||||||||||||| || ||  |||| || ||||||||||| ||| | ||||| ||||||||||| ||  ||||||| |||||  ||        | |          |  | || || ||| ||||  | |   |   |  ||  ||| || |||   |||                            
TCTCTGCCAAATGTTTATTATCAATGCTGGTCCTGGCTTTAGGCTGCTCTGGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgt----gaaaatgtttttcttctatta-ttcttacttcataaattcgtagagccttcaaaatatgctgtataactttgtctctggggtttggaatttctcctcag

upper sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
lower sequence: Vv18s0001g12950.t01 (Vitis vinifera), 5'ss of exon 6
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagttt-------ccactgaggcaca---agcgacagaacttttttcttgataacattgcttaatgtctaaggtattcttatgtttttag------------------------------------------
 || | ||||||||||||  | ||||||||||| |||||  |||| || |||||||| |||||| | ||||||||||| ||||| ||  ||||||| ||||||||||          | |           || |   || ||   |  ||| ||  | ||   | |||     || ||||| |  || ||                                           
ACTTTGCCAAATGTTTATCATTAATGCTGGTCCAGGTTTTAGGCTGCTCTGGAACACCGTGAAGACTTTTCTTGATCCAAAAACAACTTCCAAGATTCATgtaagttaaaagaagttattttaatctgtttagagtatgatctccctgtttgttagaagtgtacactgtgct--gttttctt-tacttctaacagaagtcataaggagtgattgtttttggaaattttcctcag

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:     GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACAT                         GTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG
genomic: GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttcc ... atgtttttagGTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG
EST: gi|32933167|gb|CF037979.1|CF037979
EST:     GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACAT                         GTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGAC
genomic: GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttcc ... atgtttttagGTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGAC
EST: gi|211297306|gb|FK975033.1|FK975033
EST:     GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACAT                         GTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG
genomic: GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttcc ... atgtttttagGTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG
EST: gi|71447517|gb|DR828567.1|DR828567
EST:     GTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACAT                         GTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG
genomic: GTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttcc ... atgtttttagGTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG
EST: gi|6564181|gb|AW231803.1|AW231803
EST:     GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACAT                         GTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG
genomic: GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttcc ... atgtttttagGTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG
EST: gi|211297305|gb|FK975032.1|FK975032
EST:     GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACAT                         GTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG
genomic: GGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtttcc ... atgtttttagGTTCTTGGGAACAAATACCAAAGTAAGCTGCTTGAAATAATTGACGCCAG