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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCGTCTTCTGCATAAACATTGTGCTGGGAAATGTCAGCTTGCGCTACATCCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtatatcttgatataccctcactttgtgtatcttgcttgcttgctgtcgtatcatcatcatcatcatcatctcctgcttggttcag

Basic information

species Zea mays
transcript GRMZM2G127591_T02
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G127591_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os04g59550.1 (Oryza sativa), 5'ss of exon 3
TTCGTCTTCTGCATAAACATTGTGCTGGGAAATGTCAGCTTGCGCTACATCCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtatat---cttgatataccctcactttgtgtatcttgcttgcttgctgtcgtatcatcatcatcatcatcat-ctcctgcttggttcag-------------------------------------
|| ||||||||||||||||| ||||| |||||||||||| |||||||||||||||||||||| |||||||| |||||||||||||| ||||||||||| |||| |     ||   |   ||| || |  |   | || | |  |   | |||| |  | | ||| |||||  | || | || ||   ||                                      
TTTGTCTTCTGCATAAACATCGTGCTCGGAAATGTCAGCCTGCGCTACATCCCAGTCTCCTTTATGCAGACTATCAAATCTTTCACCCCTGCAACCACGGgtagagtcattttgcacctccttacatcatcactattccatattcattttcgttttcttagcattatcatattgctacagcatgtaacaccctccctgatggtctgcttccaatccatgtcatgcag

upper sequence: GRMZM2G127591_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA06G11850.1 (Glycine max), 5'ss of exon 2
TTCGTCTTCTGCATAAACATTGTGCTGGGAAATGTCAGCTTGCGCTACATCCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtatatct--tgatataccctcac-tttgtgtatcttgcttgcttgctgtcgtatcatcatcatcatcatcatctcctgcttggttcag-------------
|| || ||||| || ||||| || ||||| ||||| ||| | || ||||| ||||| || || ||||||||||| ||||| ||||| ||||| ||||||||||  | |  | ||      | || ||| ||   | |  |||||  |||   |||  | |   |       || | |  ||    |  |             
TTTGTGTTCTGTATTAACATAGTTCTGGGGAATGTGAGCCTACGATACATTCCAGTTTCTTTTATGCAGACAATAAAATCATTCACACCTGCCACCACAGgtaggtttattaatcggtgttaacatttctgccacatatttgctacctgctttatattgagacttgaggatatttacatctgatattggtgaactggcacag

upper sequence: GRMZM2G127591_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA04G42900.1 (Glycine max), 5'ss of exon 2
TTCGTCTTCTGCATAAACATTGTGCTGGGAAATGTCAGCTTGCGCTACATCCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtatatct--tgatataccctcac-tttgtgtatcttgcttgcttgctgtcgtatcatcatcatcatcatcatctcctgcttggttcag-------------
|| || ||||| || |||||||| ||||| ||||| ||| | || ||||| ||||| || || ||||||||||| || || ||||| ||||| ||||||||||  | |  | ||      | || ||| ||     |  |||||  |||   |||  | |   | |     || | |  ||   ||  |             
TTTGTGTTCTGTATTAACATTGTTCTGGGGAATGTGAGCCTACGATACATTCCAGTTTCTTTTATGCAGACAATAAAGTCATTCACACCTGCCACCACAGgtaggtttaataatcggtgttaacatttctgccatatatttgctacctgctttatattgagacttaaggatatttacatctgattttggtgaactggcacag

upper sequence: GRMZM2G127591_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA14G23570.1 (Glycine max), 5'ss of exon 2
TTCGTCTTCTGCATAAACATTGTGCTGGGAAATGTCAGCTTGCGCTACATCCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtatatct--tgatataccctcactttgtgtatcttgcttgcttgctgtcgtatcatcatcatcatcatcatctcctgcttgg-ttcag---
|| || ||||| || |||||||||||||| ||||| ||| | || || || || || || || ||||||||||| ||||| ||||| || ||||| |||||||    |  |  |     ||    || ||  |  || |||     ||   | | |    |||  |||||   |  || |    ||| |   
TTTGTGTTCTGTATTAACATTGTGCTGGGGAATGTGAGCCTACGATATATACCGGTTTCTTTTATGCAGACAATAAAATCATTCACCCCAGCAACAACAGgtaagattaatagttggttctggtgttctgctttatg-ttgtgatttgaattttgaaggacattttcatctgattttggtgaacttctgcag

upper sequence: GRMZM2G127591_T02 (Zea mays), 5'ss of exon 1
lower sequence: AT1G21870.1 (Arabidopsis thaliana), 5'ss of exon 2
TTCGTCTTCTGCATAAACATTGTGCTGGGAAATGTCAGCTTGCGCTACATCCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtata------tcttgatat--accctcactttgtgtatcttgcttgcttgctgtcgtatc-atcatcatcatcatcatctcctgcttggttcag
|| || ||||| || ||||||||| |||| ||| | ||  |  | ||||| || ||||| || |||||||| ||||||||||| ||||||||||| |||||| ||      | || | ||  |   |   |     ||   || ||  ||  | | ||    ||     |     | ||    |  |  || |||
TTTGTGTTCTGTATCAACATTGTGTTGGGGAATATTAGTCTTAGATACATTCCTGTCTCTTTTATGCAGACTATCAAATCTTTAACTCCTGCAACAACAGgtttagggtttttttaagattgagaatttttcaaaataaagtgatttttttttattgttctgattggtttttgtgtaatggttttttgagtgcag

upper sequence: GRMZM2G127591_T02 (Zea mays), 5'ss of exon 1
lower sequence: PP1S60_175V6.3 (Physcomitrella patens), 5'ss of exon 4
TTCGTCTTCTGCATAAACATTGTGCTGGGAAATGTCAGCTTGCGCTACATCCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtatatcttgatataccctcactttgtgtatcttg-cttgcttg-ctgtcgtatcatcatcatcatcatca-tctcctgcttggttcag-----------
|||||||| ||  | ||||| ||||| ||||| |||||| | || ||||| || || ||||| ||||| || ||||| || ||||| ||||| |||||||||||  |    | |        | || |||  ||| |||| | |  | |  ||  ||  | | ||  || |  |||||   ||   |             
TTCGTCTTTTGTGTTAACATCGTGCTTGGAAACGTCAGCCTTCGTTACATACCTGTTTCCTTTATGCAAACCATCAAGTCCTTCACACCTGCCACCACAGgtatgccgaattgttttaaatttctgagtactttgacttgatggatttttttactattttaaacaaaattaacctcctaactgccgctccctgtcatttc

upper sequence: GRMZM2G127591_T02 (Zea mays), 5'ss of exon 1
lower sequence: PP1S6_175V6.1 (Physcomitrella patens), 5'ss of exon 3
TTCGTCTTCTGCATAAACATTGTGCTGGGAAATGTCAGCTTGCGCTACATCCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtatatcttgatataccctcactttgtgtatcttgcttgcttgctgtcgtatcatcatcatcatcatcatctcctgcttggttcag---------------
 |||| || ||| | || || ||||| ||||| |||||| |||| ||||| ||  | |||||||||||||| |||||||| ||||| ||||| || |||||||   | || | |  |      ||| |||  ||  ||      | | || |     || | | | |  ||     ||   ||||                
ATCGTTTTTTGCGTCAATATAGTGCTTGGAAACGTCAGCCTGCGTTACATACCTATTTCCTTCATGCAGACTATCAAATCCTTCACACCTGCCACTACAGgtacgccatgttgttgcaagctattgcgtacttttgttctcgaatttagttttcgtttcgttaac-tggtcctgctctcatttcactcttccttaactgga

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|32827243|gb|CD966921.1|CD966921
EST:     CCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAG                         TTATTCTGCAGTGGCTAGTCTGGAGCAAGCATTTCGAGTGGCGCATATGGG
genomic: CCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtatatcttg ... cttggttcagTTATTCTGCAGTGGCTAGTCTGGAGCAAGCATTTCGAGTGGCGCATATGGG
EST: gi|211235624|gb|FL131360.1|FL131360
EST:     CCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAG                         TTATTCTGCAGTGGCTAGTCTGGAGCAAGCATTTCGAGTGGCGCATATGGG
genomic: CCCAGTCTCCTTCATGCAGACAATCAAATCTTTCACTCCTGCAACCACAGgtatatcttg ... cttggttcagTTATTCTGCAGTGGCTAGTCTGGAGCAAGCATTTCGAGTGGCGCATATGGG