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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatattcctgcttagtaaggaggtagtacattttaatatgtagcagatacaattaactaaatactgaaagtttgagctattgatttgtttttttgcag

Basic information

species Zea mays
transcript GRMZM2G006452_T01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006452_T01 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os01g67740.1 (Oryza sativa), 5'ss of exon 19
GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatattcctgcttagt--aaggaggtagt-acattttaatatgtagcagatacaatt--aactaaatactgaaagtttgagcta--ttgatttgtttttttgcag----------------------------------------
||||||||||| || ||||||||||| || |||||||||||||||||||||||||| |||||||||||||| |||||| | |   || ||||  |  || || | | | |  |   | |    |    | |   ||  |   || |    || |  |   |||     |||| |||  |    |                                        
GTTGATGCTGCCCTAGATCTGAGCCATACACAAAACATTGGTAGAATGATCAAGGCGCATTTTCCGCACTCCCAGgta-tgtgc-ccagcttgctccaaagatgcaatcatgtgacagttcacaattcacatccttgcacacaatttacaaatgcatatactaggcaaatttatttcatcattggagttcagggttctgaaaattggtgctactacattttcag

upper sequence: GRMZM2G006452_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA13G27210.1 (Glycine max), 5'ss of exon 20
GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatattcctgcttagtaaggaggtagtacattttaatatgtagcagatacaattaactaaatactgaaagtt-tgagctattgatttgtttttttgcag
|||||||| ||||||||| |||||||||| |||||||| || |||||||| |||||||| ||||||||||||||||||    ||   || | | |   |  ||   |  | ||   || | |    | |||||    ||| | | | ||     | |   | |||     || |  | 
GTTGATGCAGCTCTTGATTTGAGCCACACACAAAACATAGGGAGAATGATAAAGGCTCACTTTCCGCACTCTCAGgtagaggataattgttca-tgttgtcgtgtgatttcttgcaatcttgtctttccaattc-taaaaaattaatagccacaaacctcttattgtaggttataaa-

upper sequence: GRMZM2G006452_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA12G36520.1 (Glycine max), 5'ss of exon 20
GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatattcctgctta-gtaaggaggtagtacattttaatatgtagcagatacaattaactaaatactgaaa--gtttgagctatt--gatttgtttttttgcag-----------------------------------------------------------------------
|||||||| ||||||||| |||||||||| |||||||| || |||||||| |||||||| ||||||||||||||||||    ||   || | | ||      ||  |   ||||  | | | | | |     |    |   | |||  |  |||  |   |||  ||  |||  ||||  |                                                                        
GTTGATGCAGCTCTTGATTTGAGCCACACACAAAACATAGGGAGAATGATAAAGGCTCACTTTCCGCACTCTCAGgtagaggataattgttgatgttgtcgtgtgat-ttttttggtttcttgtatacttc-tccttttggttctgctattgttaaattcattctgacatgtcattttcaaagttcctgctagtgacagttcagcatccaataagttgaataacctcatttctttggttcttttgatttgcag

upper sequence: GRMZM2G006452_T01 (Zea mays), 5'ss of exon 13
lower sequence: AT5G62410.1 (Arabidopsis thaliana), 5'ss of exon 19
GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatattcctgcttagtaaggaggtagtacattttaatatgtagcagatacaattaact--aaatactgaa-agtttgagctattga---tttgtttttttgcag
|||||||| ||||||||||| || ||||| || ||||| || |||||||| |  |||||||| || ||||| |||||  || ||  ||  ||          || || | | |  ||||||     |  |   || |       || || | |||  ||| || |   |   |  ||   |||
GTTGATGCAGCTCTTGATCTCAGTCACACACAGAACATAGGAAGAATGATAAGAGCTCATTTCCCTCACTCGCAGgtc-taaatctctatttcaagccttactaatatactcttctatgtatttacttaatccaattttggtctctaaacattttctgctttttaaactcgatgcttaaacag

upper sequence: GRMZM2G006452_T01 (Zea mays), 5'ss of exon 13
lower sequence: AT3G47460.1 (Arabidopsis thaliana), 5'ss of exon 19
GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatattcctg-------cttagtaaggaggtagtacattttaatatgtagcagatacaattaactaaatactgaaagtttgagctat-tgatttg--tttttttgcag
|||||||| ||||||||||| |||||||| || ||||| || |||||||| ||  ||||||| || || || ||||| |||  ||   |       || | |  | ||  |  |   || || | |    || ||    ||  || ||    ||  ||   ||| | |||| ||  || | || |||
GTTGATGCAGCTCTTGATCTAAGCCACACACAGAACATAGGAAGAATGATAAAATCTCATTTCCCACATTCACAGgtcataattttacggatttctctgattgtgtagtcaccatgattcaaaaagctttagttat--ctatttatatctcaaacattactgctgtctgatatgatttctcttacag

upper sequence: GRMZM2G006452_T01 (Zea mays), 5'ss of exon 13
lower sequence: Vv16s0022g00060.t01 (Vitis vinifera), 5'ss of exon 19
GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgt-aatatattcctgcttagtaaggaggtagtacattttaatatgtagcagatacaattaactaaatactg--aaagtttgagctattgatttgtttttttgcag
|| |||||||| |||||| | || ||||||||||||||||| |||||||| ||  | ||||| || || || ||||| | || ||   |  ||  ||      | || |   | |  |||| | |   ||  ||   |  || ||   ||| |||  | ||||  ||||    ||     
GTCGATGCTGCCCTTGATTTAAGTCACACTCAAAACATTGGAAGAATGATTAAATCCCATTTCCCACATTCCCAGgttagtaaatatatattt--tattttatttgttctcatcagcatgttg-attcacttttctttttatcctcctaaactttaggatatttttttgccaattgaa--

upper sequence: GRMZM2G006452_T01 (Zea mays), 5'ss of exon 13
lower sequence: PP1S52_57V6.1 (Physcomitrella patens), 5'ss of exon 20
GTTGATGCTGCTCTTGATCTGAGCCACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatattcc--tgcttagtaaggaggt-agtacattttaatatgtagcagatacaattaa--ctaaatactgaaagtttgagctattgatttgtttttttgcag----------------------------------------
|| || |||||||||||| |||| ||||| || ||||| |||||||||||||| |  || ||||| ||||| ||||||  | | |    ||    || |   |   |||   |  | |||      ||   || ||||  |||  |||| ||     || || |||    ||| |     |                                         
GTGGACGCTGCTCTTGATTTGAGTCACACACAGAACATAGGTAGAATGATCAAAGAACACTTTCCACACTCGCAGgtacgaaagttaaatgtcctgtcatttgtcgagtttttagtgatagtcttgagtagcagttaatcctatctacttaactcgcgaccttttgtgaagttataagatatcaaggcacttacattgtgcctgtgttgtaattttggtcag

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|60343263|gb|DN210236.1|DN210236
EST:     ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG                         TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST: gi|211376362|gb|FL264047.1|FL264047
EST:     ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG                         TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGAT
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGAT
EST: gi|22473074|gb|BU037554.1|BU037554
EST:     ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG                         TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST: gi|5525454|gb|AI861347.1|AI861347
EST:     TTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG                         TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: TTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST: gi|60342993|gb|DN209966.1|DN209966
EST:     ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG                         TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST: gi|78021476|gb|DV489863.1|DV489863
EST:     ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG                         TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST: gi|60342521|gb|DN209494.1|DN209494
EST:     ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG                         TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGCCAATGTGATA
EST: gi|6031321|gb|AW076178.1|AW076178
EST:     ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAG                         TTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGC
genomic: ACACTCAAAACATTGGTAGAATGATCAAGGCTCATTTTCCGCACTCTCAGgtaatatatt ... ttttttgcagTTCATAGTTGTCTCTTTAAAAGAGGGTATGTTCAACAACGC