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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGTAGGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggcttatatatttattgcttatttcattctgcaatttactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag

Basic information

species Zea mays
transcript GRMZM2G120175_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G120175_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os05g43790.2 (Oryza sativa), 5'ss of exon 7
GCTGTAGGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggcttatatatttattgcttatttcattctgcaatttactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag
       |||||||| || || || || ||||||||||||||||| |||||||||||||||||||| || ||||||||||| ||||||||||||||||||||||  |  ||| |    ||  ||| ||          | ||||  |     | || | | ||  |   |  || || |         ||||  |   |||                                                                                        
-------GCACTTGATACATTTAATACTGCAATTGTATCTCCAATCTATTATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAGgtaatataagttcttttgtttccttgtactgcagccattcatttggtagatgatttgaatgcccaagttattttctgaaagaaactgaatatccttg-att----------------------------------------------------------------------------------------

upper sequence: GRMZM2G120175_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA02G44980.2 (Glycine max), 5'ss of exon 6
GCTGTAGGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggcttatatatttattgcttatttcattctgcaatttactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag
       || |||||||| |||||||| |||||||||||||| ||||| ||||| ||||||||||| ||||||||||| ||||| || |||||||| |||||| | |   ||     ||||||      ||||| |||| | | |||       ||   |     | | |   |       | |    | ||||  | ||  |  |    |                                                                              
-------GCTCTTGACACCTTCAACACAGCAATTGTATCTCCTATATACTATGTCATGTTCACAACACTTACAATACTAGCCAGTGTAATAATGTTTAAGgtataatcaatt--agttttggc------atttaatgctaaatgcataagatgtttctgttgtctacggattgtacaagaacctatttacatttaaaaataatgcttacag------------------------------------------------------------------------------

upper sequence: GRMZM2G120175_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA14G03790.1 (Glycine max), 5'ss of exon 7
GCTGTAGGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggcttatatatttattgcttatttcattctgcaatttactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag
       || |||||||| |||||||| |||||||||||||| ||||| ||||| ||||||||||| ||||||||||| ||||| || |||||||| |||||| | |    |     ||||||      ||||| |||| | | |||       ||   |     | | |   |       | |    | ||||  | ||  |  |    |                                                                              
-------GCTCTTGACACCTTCAACACAGCAATTGTATCTCCTATATACTATGTCATGTTCACAACACTTACAATACTAGCCAGTGTAATAATGTTTAAGgtataatcaact--agttttggc------atttaatgctaaatgcataagatgtttctgttgtctacgaattgtacaagaacctatttacatttaaaaataatgcttacag------------------------------------------------------------------------------

upper sequence: GRMZM2G120175_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv06s0009g03650.t01 (Vitis vinifera), 5'ss of exon 7
GCTGTAGGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggc-ttatatatt---tattgcttatttcattctgcaatttactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag
       || ||||| || |||||||| ||| |||| || || ||||||||||| ||||||||| | |||||||| ||||| || || |||||||||||||||   | |  |||  |  |||| |  |||  |   |  || ||  | ||  ||  || ||  |  |  ||  | |||     |  ||| || | ||    ||||                                                                                        
-------GCTCTTGATACTTTCAACACTGCAGTTGTGTCCCCCATATATTATGTCATGTTCACATCACTTACAATCCTTGCTAGTGTGATAATGTTCAAGgtattgtcttctttatcagtggcatcttatgctggatgctgtttcctccaacctataactttttagcaaatatagctt-----catttttaggt-ttgctttatta---------------------------------------------------------------------------------------

upper sequence: GRMZM2G120175_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S49_181V6.2 (Physcomitrella patens), 5'ss of exon 7
GCTGTAGGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggcttatatatttattgcttatttcattctgcaat--ttactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag
       || || ||||| || |||||||||||||| ||||| |||||||| || ||||||||| |  | || || || || || |  || |||||||||||   |  ||      ||     |  ||   || |      |||    |  ||||   |  |     | | |  | |  ||   |    |||   | ||                                                                                            
-------GCCCTGGACACATTTAACACGGCAATTGTTTCTCCTATATATTACGTCATGTTCACATCATTGACCATCCTGGCGAGTGCTATCATGTTCAAGgtttgtgctgacgctactagcaatcctaccattgtcaaa-gtttagagcaacaatatctgtttttctaagtaggtctgtgaagatgattgatccgtacacc------------------------------------------------------------------------------------------

upper sequence: GRMZM2G120175_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ37634 (Selaginella moellendorffii), 5'ss of exon 7
GCTGTAGGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggcttatatatttattgcttatttcattctgcaatt-tactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag
       ||||| ||||| |||||||| || || || |||||| | || || || ||||||||| | || ||||| || || ||||| ||||||||||||||||     | |  |   |   | | |  |  |  ||  |  ||| |   |||||| ||    ||||  ||                                                                                                                       
-------GCACTCGACACTTTCAACACTGCCATCGTTTCTCCAGTCTACTACGTCATGTTCACAGCGCTGACAATCCTCGCGAGCGTGATAATGTTCAAGgtaa--cacgctcagttctctccct-tggacctgatgaatgattcgtg--gcaattatagctactcacacag----------------------------------------------------------------------------------------------------------------------

upper sequence: GRMZM2G120175_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ15054 (Selaginella moellendorffii), 5'ss of exon 7
GCTGTAGGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttgttttgcctttggcttatatatttattgcttatttcattctgcaatttactccctcatgcaccttttggaccctttcagatattttcatattgttgtatttgtttcatatgcattcctcagctctagtattatttgacaaaaccgtaaactgatgccatgctgtttaaatgtttgtgtag
       ||||| ||||| |||||||| || || || |||||| | || || || ||||||||| | || ||||| || || ||||| ||||||||||||||||     | |  |   |   ||| |  |  |  ||  |  ||| |     | | ||    ||||  ||                                                                                                                       
-------GCACTCGACACTTTCAACACTGCCATCGTTTCTCCAGTCTACTACGTCATGTTCACAGCGCTGACAATCCTCGCGAGCGTGATAATGTTCAAGgtaa--cacgctcagttctctcctt-tggacctgatgaatgattcgtgtca-attatagctactcacacag----------------------------------------------------------------------------------------------------------------------

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|74234882|gb|DT642796.1|DT642796
EST:     ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAG                         GATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG
genomic: ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttg ... gtttgtgtagGATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG
EST: gi|101381796|gb|EB812955.1|EB812955
EST:     ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAG                         GATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG
genomic: ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttg ... gtttgtgtagGATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG
EST: gi|148934735|gb|EC878784.2|EC878784
EST:     ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAG                         GATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG
genomic: ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttg ... gtttgtgtagGATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG
EST: gi|211152612|gb|FL453073.1|FL453073
EST:     TGCCAGCGTCATAATGTTCAAG                         GATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG
genomic: TGCCAGCGTCATAATGTTCAAGgtaaattttg ... gtttgtgtagGATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG
EST: gi|166680559|gb|EG262871.1|EG262871
EST:     ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAG                         GATTGGTCTGGTCAAAG
genomic: ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttg ... gtttgtgtagGATTGGTCTGGTCAAAG
EST: gi|148943740|gb|EC888810.2|EC888810
EST:     ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAG                         GATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG
genomic: ATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAGgtaaattttg ... gtttgtgtagGATTGGTCTGGTCAAAGCCCTGGAAGCGTCATTTCTGAAATTTGTGGCTTG