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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctcgcaagcattgtttagtggtattatttgtcttatgaattacttgaaatttgacaaagtgatgttattattgaatag

Basic information

species Zea mays
transcript GRMZM2G142334_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 5'ss of exon 3
CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctcgcaagc--attgtttagtggtattatttgtcttatgaattacttgaaatttgacaaagtgatgttattat-tgaatag
 |||||| ||||||||| |||||||||| |||||||||  | |||||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||| |   |  |  | || ||||||  | ||  |||      |||| || |   ||| || || |  | || | ||  || |||
AATGCCTGTAGAAAAGAGGCTGAGAAAGTTGATTATTCCGTTAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCATGAACCAGAGgtatattgtacaagactaactgcttagtga-agtacctgt------aatttct-gttgtttaactaatttgtcttgtcatgcgattag

upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA15G02640.1 (Glycine max), 5'ss of exon 3
---CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgta----tattctcgcaagcattgtt-tagtggtattatttgtcttatgaattacttgaaatttgacaaagtgatgttattattgaatag
     ||  || ||||  |||   ||||     || ||||||||  | |||||||||||||| || |||||||| |||||||| || |||||||||||||||    |  | | |  || | ||||  |     ||  | ||  | |  |   | |  | ||||   || ||    | ||| ||  |   
CATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAGgtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaag--agtcaatatttataaatgtatgatcattgtttcag--

upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 3
---CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctcgcaagcattgtttagtggtattatttgt-cttatgaattacttgaaat-ttgaca---aagtgatgttattattgaatag-
      |  || ||||  ||    ||||     || |||||||| || || ||||||||||| || || ||||| |||||||| || |||||||| |||||| ||| ||  |  || || ||| || |        | ||| || |  |   ||||| || |||   | |  |||| ||| |||  |   
CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgta-attttc--agtcactggttaatgctgcctgaaatgcttgtggagca---gaaatgttaacatttatgacatgtgattgttgtttcag

upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 3
---CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctcgcaagcattgtttagtggtattatttgtcttatgaattacttga---aat-ttgacaaagtgatgttattattgaatag
     ||  || || |  |||   ||||  |  || ||||||||  | |||||||||||||| || |||||||| |||||||| || || || ||||||||| ||  ||    |    ||   || | |  |    || ||||  | |   ||   ||| || | || ||    | ||| ||  |   
CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgta-atcatcatttggtcagtaatgttgcaccaac-atcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcag--

upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA07G01440.1 (Glycine max), 5'ss of exon 3
---CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctcgcaagcattgtttagtggtat------tatttgtcttatgaattacttgaaatttgacaaagtgatgttattattgaatag
   || |  || ||||  ||    ||||     || |||||||| || || ||||||||||| || || ||||| |||||||| || |||||||| |||||| ||| ||  |  || || ||| || |        |  ||||       |   ||| | |||| |  |  ||   || || ||  |   
CATCACGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgta-attttc--agtcactggttaatgctgcccgaaatgcttgtggagcagaaatcttaacattt-atgacttgtgattgttgtttcag--

upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 3
---CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctcgcaagcattgtttagtggtattatttgtcttatgaattacttgaa--atttgacaaagtgatgttattattgaatag--
      |  || || || |||  |||| |  | |||||  |  |    ||||||||||||||||| || ||||| || ||||| || ||||| ||||||||| |||     |   ||       |   | |          ||  || |||||   | |  | ||  |    ||   ||    |    
CATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTT---AGGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAGgtacatta--aaacttatcaccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgtttcag

upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv04s0008g00840.t01 (Vitis vinifera), 5'ss of exon 3
---CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctcgcaagcattgtttagtggtattatttgtcttatgaattacttgaaatttgacaaagtgatgttattattgaatag-------------------------------------
     ||    | ||| ||||   ||||  || ||||||||    ||||||||||||||||| | ||| ||||| |||||||| |||||||| |||||||| |  | |   ||      ||  | | |  |  |    |||  |  | |||  |  ||| |    |    |  ||| || |                                        
CATGGTGGGAATCGAAGAGATTTAGAGATGGCGGATTATTCACCAAGCAGGCATCCTGAGTTCCACTATAAAACCGAGTTTCAGAGCCATGAACCAGAGgtgtcctttaagaatttcgtttctgggttgctgatga--ttaccatatccttttatcttgtctgtcttccatccttactggactctggaatttaattctgcatttaatatgtttgaattcag

upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 3
---CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatat-tctcgcaagcattgtttagtggta--ttatttgtcttatgaattacttgaaatttgacaaagtgatgttattattga-atag--------------------
      |  || ||||  |||  |||||     || ||  | ||    |||||||| || ||||| || |||||||||||||| |||||||| || ||||||| | | ||   ||       |    | |  || ||||    |    || ||    |       || || | | |||  ||  | |                     
CATGGAGGATCAAGAAGGGATCTTGAGAGGATGGACTACCCAATT---AGGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAGgtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcag

upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S425_2V6.1 (Physcomitrella patens), 5'ss of exon 3
CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattct----cgcaagcattgtttagtggtattatttgtct-tatgaattacttgaaatttgacaaagtgatgttattattgaatag----------
||     |  |||  ||    || || ||| ||  |    |    ||||||||||| | ||| |||  ||||||||||||||| |||||||| |||||| ||           |    ||   ||     | |   || | |  ||||| |  |   ||||  |   |   |||   ||  | ||           
CAAAGGACACGAAGGGAGTTGGAAAAGGCTAATACTGTGGTATCGAGGCATCCTGAATATCGATACTCAACTGAGTTTCAAAGTCATGAGCCGGAGgtaaatctaataatatcaatgctgcccagatcagtaaccagtttctgagaatttccagcgttttgtgacgattgcgttcacatatagtaactgtatatag

upper sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 5'ss of exon 3
CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtat-------attctcgcaagc--attgtttagtggtattatttgtcttatgaattacttga--aatttgacaaagtgatgttattattgaatag-----
||     |  ||| |||    || |  || ||||  |    |   || ||||  |||| ||| |||   |||||||||||||| ||||||||||||||||       ||| |     |   | ||   | | || |      | ||||   |||  |    | |   | | |||  | |  | ||  |  |      
CAAAGAACACGAAGAGAATTGGAAAGGGCAGATTCCTTGGGCCCGAGACATCTAGAGTATCGTTACTCCACTGAGTTTCAAAGTCATGAGCCAGAGgtattgcaaatatttttatgggtgaactgagcattagtgtcgccaat-ttatagcttatgtagttagtgccatacagttttttagtcatcaaggattataa

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|32794135|gb|CD946371.1|CD946371
EST:     GGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAG                         TTTGATTACCT
genomic: GGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctc ... tattgaatagTTTGATTACCT