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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcagatgcacatcagtagcaacaatgactaggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag

Basic information

species Zea mays
transcript GRMZM2G075719_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os07g31370.1 (Oryza sativa), 5'ss of exon 3
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcagatgcacatcagtagcaaca-atgactaggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag
||||||||||||||||||| | ||||||||||| |||||||||||||||||||||||||| ||||||||||| ||||| |||||||||||||   ||||||     |    || ||||        |||   |      |  || || | | | |    || || | ||| || |  |  ||  | ||                                                                      
GGATACAGCTGGTCAGGAACGATTCAGGAGTTTGATTCCAAGCTATATCAGAGACTCTTCCGTTGCTGTCATCGTATTTGATGTTGCAAgtatgttctctcatctccatgtgcgcacatgggtg-gcatgtgtgttctcactaactgcttttatactagcaacaat-gcagcagaccaacagagaattgcc-------------------------------------------------------------------

upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G04330.1 (Glycine max), 5'ss of exon 3
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcagatgcacatcagtagcaacaatgactaggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag
|||||||||||| |||||||| || || ||| | ||||||||||| || || ||||| || || ||||| |||||||  |||||||||||||     | |  |  || ||  |             ||   ||||                |   ||| ||  | | |   | ||   ||    ||||| ||||||||  |      |  | |                                            
GGATACAGCTGGCCAGGAAAGATTTAGAAGTCTTATTCCAAGCTACATTAGGGACTCATCTGTAGCTGTTATTGTATATGATGTTGCAAgtacgtcatttgggattcgctttctttt---------cacctttta----------------ctattgcccactatttgatgctatc-ttacatggttttgtcttttaataaaagttaatctgatc------------------------------------------

upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA05G05860.1 (Glycine max), 5'ss of exon 3
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcagatgcacatcagtagcaacaatgactaggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag
|||||||||||| |||||||| || || ||| | ||||||||||| || || ||||| || |||||||||||||| |  |||||||||||||  |  | |    ||   |      ||     ||   | | | | || |||  ||  | ||   ||||  |   |     || | |  |  |  | |||    |||                                                            
GGATACAGCTGGACAGGAAAGATTTAGAAGTCTTATTCCAAGCTACATTAGGGACTCATCTGTTGCTGTCATTGTTTATGATGTTGCAAgtatgccattttgacctactttcttttca-----actattccctcatgacaaattatattttc--ttgcaggtttttcatttca-ttataataatatattaatagtta------------------------------------------------------------

upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA17G16200.1 (Glycine max), 5'ss of exon 3
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcagatgcacatcagtagcaacaatgactaggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag
|||||||||||| |||||||| || || ||| | ||||||||||| || || ||||| || |||||||||||||| |  |||||||||||||  |  | |    ||     ||   |    ||  |    ||  | ||  ||  ||  | ||   |||| ||   |     |||| |  |  |  | |||    |||                                                            
GGATACAGCTGGCCAGGAAAGATTTAGAAGTCTTATTCCAAGCTACATTAGGGACTCATCTGTTGCTGTCATTGTTTATGATGTTGCAAgtatgccatttagacct-----gctttctttcacctattccctccatgacgaattatattttc--ttgcagatttttcatttcaat-ataataatatattaatagtta------------------------------------------------------------

upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA01G41100.1 (Glycine max), 5'ss of exon 3
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgta-atctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcagatgcacatcagtagcaacaatgactaggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag
|||||||||||| |||||||| || || ||| | ||||||||||| ||||| ||||| || || ||||| |||||||  |||||||||||||  ||  |    || |   |    | |||     |   | || | |   |  |  || |   |  |  ||||   |     |  | | ||  |   || ||||  |                                                             
GGATACAGCTGGGCAGGAAAGATTTAGAAGTCTTATTCCAAGCTACATCAGGGACTCATCTGTAGCTGTTATTGTATATGATGTTGCAAgtacgtcatttggggtttgctttcttctcac-----cttttactgttgcccactatttgatgctatct-tacatggcttttgccttttaataaaag--ttaatctgat-------------------------------------------------------------

upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT2G44610.1 (Arabidopsis thaliana), 5'ss of exon 3
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcag-atgcacatcagtagcaacaatgactaggaagttttatcttttaaggattaaggacataaatttt-tactattttattcttacctttatttgtttcatgttgtag-----
|||||||||||| || ||  | ||||||||| ||||||| ||||||||||| || || || |||||||| ||||| |  |||||||||||||      |  |  |||  || | || ||| |   | ||| |     |    | ||  |       ||    ||||||     |   | |     ||||    || |     ||| |   ||  ||| |    | |   | ||     ||  |||||||     ||        
GGATACAGCTGGGCAAGAGCGATTCAGGAGTCTAATTCCGAGCTATATCAGGGATTCCTCCGTTGCTGTTATTGTGTATGATGTTGCAAgtatgtgtaccttcactcgttctctcaaacacatgaatattttcccatatctgagatcttggggatgtggttttcagtaatcttatgaatttatgcgtttcgatttcttc--tttatgttgatccattgtgcgttgtgaaactcgagatttattttgttttccactgacatatag

upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv02s0012g00710.t01 (Vitis vinifera), 5'ss of exon 3
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgta-atctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcagatgcacatcagtagcaacaatgactaggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag
||||||||| || |||||||| ||||||||| | ||||| ||||| || || || || || ||||| ||||||||||  |||||||||||||       || | | |||||  ||               |  ||  ||| |    | | ||   |     || | |   |    || ||     |  |  |                                                                  
GGATACAGCCGGGCAGGAAAGATTCAGGAGTCTCATTCCGAGCTACATTAGGGATTCATCTGTTGCAGTCATTGTATATGATGTTGCAAgtatgaaatcctttatttctctgccatctttcttttttggcttctt--gaatagtttttgcattgtagatg-attattctaattgttgcctgatgggcatgtt------------------------------------------------------------------

upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv15s0021g00640.t01 (Vitis vinifera), 5'ss of exon 3
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcagatgcacatcagtagcaacaatgactaggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag
|||||| || || |||||||||||||||||| | || ||||| || || || ||||| || ||||| ||||||||||  |||||||||||||  |  | |  |  | | |    ||               ||  |||||||   |  |     || ||  ||  |  |         |  |      |  |||||  | | |                                                      
GGATACTGCAGGACAGGAAAGGTTCAGGAGTCTGATCCCAAGTTACATTAGGGACTCCTCTGTTGCAGTCATTGTATATGATGTTGCAAgtatgcatttttcgcttttattttcca---------------ttatggaaaaatgtttctcatctattcatgtctttttctttctctcttttgtttccctcccttttgggtactt-----------------------------------------------------

upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S346_29V6.1 (Physcomitrella patens), 5'ss of exon 4
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctctctgtctctctcgcacacacaaacacacattctttaggaaaaaaaatggtatcagatgcacatcagtagcaacaatgactaggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag
|||||| ||||| ||||| |||||||||||||||||||| || || ||  | || || || || || ||  |||| | ||||||| |||||||   |      | | | |  || |     |      ||| | |   |     | ||  |  | |    || |||| ||  |||   |     | | || |                                                                 
GGATACCGCTGGACAGGAGAGGTTCAGGAGTTTAATTCCTAGTTACATTCGGGATTCGTCCGTGGCAGTGGTTGTGTACGATGTTTCAAgtaagtac-----atttttgtgacaaaagaggaattttgttcctcacacagttgtacgg--ttggctcagtattagta-cattaattgtttcactgatgtaacacggg------------------------------------------------------------

upper sequence: GRMZM2G075719_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S456_9V6.1 (Physcomitrella patens), 5'ss of exon 4
GGATACAGCTGGTCAGGAAAGGTTCAGGAGTTTAATTCCAAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctctctgtctctc-tcgcacacacaaacacacattctttaggaaaaaaaatggtatcagat--gcacatcagtagcaacaatgac-taggaagttttatcttttaaggattaaggacataaatttttactattttattcttacctttatttgtttcatgttgtag
||| |||||||| || || |||||||||||||||||||| ||||| ||  ||||||| || || || ||  |||| | ||||||| | |||||  | | | | |    | | | |   |    |   | |    |||          |  |    ||  ||   | | |||   || |||| ||  |||                                                                        
GGACACAGCTGGACAAGAGAGGTTCAGGAGTTTAATTCCCAGCTACATTCGAGACTCGTCTGTGGCAGTAGTTGTTTACGATGTTTCGAgtaag-tatatatataaggcattgtaaggagtttcgttcttcacctagctgtgctgtggtcactgtattcgcgtgttaatagttgcattgacataacaaga-----------------------------------------------------------------------

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|211109341|gb|FL282964.1|FL282964
EST:     AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAA                         GCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG
genomic: AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctc ... catgttgtagGCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG
EST: gi|32840351|gb|CD980032.1|CD980032
EST:     AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAA                         GCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG
genomic: AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctc ... catgttgtagGCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG
EST: gi|211109340|gb|FL282963.1|FL282963
EST:     AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAA                         GCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG
genomic: AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctc ... catgttgtagGCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG
EST: gi|116822600|gb|EC866010.1|EC866010
EST:     AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAA                         GCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG
genomic: AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctc ... catgttgtagGCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG
EST: gi|32836609|gb|CD976287.1|CD976287
EST:     AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAA                         GCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG
genomic: AAGCTATATCAGAGACTCTTCAGTTGCTGTCATTGTATTCGATGTTGCAAgtaatctctc ... catgttgtagGCAGGCAGTCTTTCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTG