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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctgacttgtacaacctttatttccaaatatgccactaattatgtctgtcctttag

Basic information

species Zea mays
transcript GRMZM2G067985_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os05g01600.1 (Oryza sativa), 5'ss of exon 2
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAG-AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcag-----------ccccttggccctgac--------ttgtacaacctttatttccaaatatgccacta-attatgtct-gtcctttag
                           |  |||||||| |||||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||||| |           |   ||  | || ||         ||||   | | |  | |  |||||  || || ||||  | |  || | |||
---------------------------CTCTTCTGTAGGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAGgtctgattttctttttcttttttactcttacgtaatgtaatgtatgtcgtctcctgctgaatattacattacattacatttcatcatgtag

upper sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 5'ss of exon 2
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcag-----------ccccttggccctgactt--------gtacaacctttatttccaaatatgccacta-attatgtct-gtcctttag
                                     ||||||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||||| |           |   ||  | || || |        |||   | | |  | |  |||||  || || ||||  | |  || | |||
-------------------------------------GAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAGgtctgattttctttttcttttttactcttacgtaatgtaatgtatgtcgtctcctgctgaatattacattacattacatttcatcatgtag

upper sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagcc----------ccttggccctgacttgtac-aacctttatttccaaatatg-------ccactaattatgtctgtcctttag------
                                 || | ||||||| ||||||||||| || ||||| |||||||| |||||||| || |||||||| ||||| ||              | |   |||  | || | ||||||  ||     | |||       | ||| || |||  | |  | ||       
---------------------------------TG-AAAAATGGCCGATGGTGAGGATATTCAGCCACTTGTCTGTGACAATGGAACTGGAATGGTGAAGgtgagttagactgtttatttagatactgtatggttctaaccttctttgttgtacatgtgtaagactactgatcatgatttttgtatattaacag

upper sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctgacttgtacaac----ctttatttccaaatatgccactaattatgtct-gtcctttag-------------------------
                            || | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| || ||||||||||||||  | |  ||   | |   |  | |||        ||| |     | |||   |  |||  |   |  ||||||                         
----------------------------AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc

upper sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
lower sequence: PP1S372_38V6.3 (Physcomitrella patens), 5'ss of exon 2
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAA----TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctg---acttgtacaacctttatttccaaat-----atgccactaattatgtctgtcctttag------------------------------------------------------------------------------------------------
                     ||| ||||| ||   |  ||    ||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  ||    |  ||      ||   |  ||   |    | |||||     |||| |  |||   | ||  | |||                                                                                                  
------------------TGGTTG-AGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag

upper sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
lower sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAA----TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctg---acttgtacaacctttatttccaaat-----atgccactaattatgtctgtcctttag------------------------------------------------------------------------------------------------
       | |   ||      ||| ||||| ||   |  ||    ||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  ||    |  ||      ||   |  ||   |    | |||||     |||| |  |||   | ||  | |||                                                                                                  
------GTGTT-GCAAAGTGGTTG-AGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag

upper sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 3
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctgacttgtacaacctttatttccaaatatg--ccactaattatgtctgtcctttag----------------------------
                          |  | | |  |||||||||||| ||||||||  | |||||  | || ||||||||||| || |||||||||||||| ||  |  |   |   |        |      ||||| ||  ||   || |   |       | || ||                             
--------------------------GTCGGTATTAAGAAATGGCTGACGGTGAGGAAGTACAGCCCTTGGTGTGCGACAATGGAACTGGAATGGTCAAGgtgaggtcactcttctaaaacccagagattaacttttccgaacttggttcattggattcaaggattctataatcttgagcttctgctgaaaaatattcta

upper sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
lower sequence: PP1S372_38V6.4 (Physcomitrella patens), 5'ss of exon 2
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctg---acttgtacaacctttatttccaaat-----atgccactaattatgtctgtcctttag------------------------------------------------------------------------------------------------
                           |    ||  |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  ||    |  ||      ||   |  ||   |    | |||||     |||| |  |||   | ||  | |||                                                                                                  
-------------------------GTCCAAACTA-AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag

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|149057033|gb|EE156589.2|EE156589
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG                         GCTGGTTTTGCTGGGGACGATGCACCAAGGGCGGTTTTCCCTAGCATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagcccct ... tgtcctttagGCTGGTTTTGCTGGGGACGATGCACCAAGGGCGGTTTTCCCTAGCATTGTT
EST: gi|31355571|gb|CD439928.1|CD439928
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG                         GCTGGTTTTGCTGGGGACGATGCACCAAGGGCGGTTTTCCCTAGCATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagcccct ... tgtcctttagGCTGGTTTTGCTGGGGACGATGCACCAAGGGCGGTTTTCCCTAGCATTGTT
EST: gi|30306784|gb|CD001457.1|CD001457
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGATGATGCACCAAGGGCGGTTTTCCCTAGCATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagcccct ... tgtcctttagGCTGGTTTTGCTGGGGACGATGCACCAAGGGCGGTTTTCCCTAGCATTGTT
EST: gi|211380786|gb|FK990764.1|FK990764
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGATGATGCACCAAGGGCGGTTTTCCCTAGCATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagcccct ... tgtcctttagGCTGGTTTTGCTGGGGACGATGCACCAAGGGCGGTTTTCCCTAGCATTGTT