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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctgctgcgatgtaaacttagtaagcttgttataaagtttctctgtggtccttaactgtttcattttttag

Basic information

species Zea mays
transcript GRMZM2G141587_T03
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctgctgcgatgtaaacttagtaagcttgttataaagtttctctgtggtccttaactgtttcattttttag
||||||||||||||||||||| |||||||||||||| |||||| |||| ||||||||||||||||||||||||||||||| | ||||||||||||||||||||  ||| ||||||||||||  |  | || ||||||    |  || |||||    || | |      || | ||||| ||||||| ||
AGTTCCTGTTGCTAGCATGGACAGCAGTGGAAAAATCATATGGTCAAAACATAATGAAATCCAAACTGTTAATATCAAGACTATTGGTGCAGACAATGAGgttttctt-gttcaccatgctaatatgttgaaaacttgtatactttcttatacgtcttgttta-----ctaacctgttccatttttcag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 5'ss of exon 1
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctgctgcgatgtaaacttagtaagcttgttataaagtttctctgtggtccttaactgtttcattttttag
||||||||||||||||||||| |||||||||||||| |||||| |||| ||||||||||||||||||||||||||||||| | ||||||||||||||||||||   | |||||||||||||  |  | || ||||||   |  |||  |   | ||     |    |||| | |||||  |||||| ||
AGTTCCTGTTGCTAGCATGGACAGCAGTGGAAAAATCATATGGTCAAAACATAATGAAATCCAAACTGTTAATATCAAGACTATTGGTGCAGACAATGAGgtt--ttctgttcaccatgctaatatgttgaaaacttgtaatactttcttatacgtcatgtt----tcctaacctgttctatttttcag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgtt--gcctttgtt----caccatgctgctgcgatgtaaacttagtaagcttg---ttataaagtttctctgtggtccttaactgtttcattttttag---------
||||||||| ||||||||||| | ||| || |||||||| ||| | |||||||||||||| || ||||| ||||| || ||||| || |||||    |||||   | || ||||    |    |  |  || | |||| | || |  |||  |   |  |||  | ||| | |  |   | ||   | ||  |  ||          
AGTTCCTGTGGCTAGCATGGACAACAGCGGGAAAATTATTTGGTCTAAGCATAATGAAATTCAGACTGTCAATATAAAAAGTGTAGGAGCAGATGTAGAGgtatgggctctgttattcctttttttttttgggctgtataatttgcgagcaagaagtgttaagttctctttatttttagtgacatgtgcaagtactatgcttcttag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgtt---gcctttgttcaccatgctgctgcgatgtaaacttagtaagcttgt-tataaagtttctct-gtggtcctt--aactgtttcattttttag
||  ||||| || |||||||||| |||||| ||||| || ||||| |||||||||||||| |||||||| ||||| | |||||| || |||||    |||||    ||   | || ||| |  |  | || |||||  |  ||||||     |  ||| || || | |||   | |  || | ||   ||||||||
AGAACCTGTAGCCAGCATGGATAACAGTGGGAAAATAATTTGGGCTAAGCATAATGAAATTCAAACTGTCAATATAAGGAGTGTAGGAGCAGATGTGGAGgtatgggctcatttttaccctttttgtccg-tgtaa--tatgtaagcaaaagtggaaacttgctttagtgacacatgcaagtattatgttttttag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgtt---gcctttgttcaccatgctgctgcgatgtaaacttagtaagcttgt-tataaagtttctct-gtggtcctt--aactgtttcattttttag
||  ||||| || |||||||||| |||||| ||||| || ||||| |||||||||||||| |||||||| ||||| |  ||||| || |||||    |||||    ||   | || ||| |  |    |  | |||  |  ||||||     |  ||| || || | |||   | |  || |  |   ||||||||
AGAACCTGTAGCCAGCATGGATAACAGTGGGAAAATAATTTGGGCTAAGCATAATGAAATTCAAACTGTCAATATAAGAAGTGTAGGAGCAGATGTGGAGgtatgggctcatttttacctttttttatccgtctaa--tatgtaagcaaaagtggaaacttgctttagtgacacatgcaagtactatgttttttag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgtt--gcctttgttcaccatgctgctgcgatgtaaacttagtaagcttg---ttataaagtttctctgt---------ggtccttaactgtttcattttttag
||| ||||| ||||||||||| | |||||| |||||||| ||| | |||||||||||||| || ||||| ||||| || ||||| || |||||    |||||   | || | ||   |||  |  || | |||| | || |  |||  |   |  |||  | ||| | |         | |   ||| |  |    || ||||
AGTACCTGTGGCTAGCATGGACAACAGTGGGAAAATTATTTGGTCTAAGCATAATGAAATTCAGACTGTCAATATAAAAAGTGTAGGAGCAGATGTAGAGgtatgggctctattattcatttttttg-gctgtataatttgcgagcaagaagtgttaagttctctttatttttagtgagatgtgtaagtactatgcttcttag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgt---tgcctttgttc--accatgctgctgcgatgtaaacttagtaagcttgttataaagtttctct--gtggtccttaactgtttcattttttag
| ||||||| ||||||||||| |  |  |||||||| |||||||| |||||||||||||| |||||||  || ||||| ||| ||||||||||  | |||||    ||| |  ||   ||  |  | ||| |   ||   | |   |  |  || |    |||| |    || |   |   ||||   |   ||||
AATTCCTGTCGCTAGCATGGACAATACCGGAAAAATCATATGGGCTAAGCATAATGAAATTCAAACTGCAAACATCAAAAGTATTGGTGCAGATTACGAGgtacacgccatacttgtaactcttatactgtggcataggatgacctatttgttttttgtttttcgcctgatgataagtttttgttctgtaacttag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 14
---AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAA----TGAGgttgcctttgttcaccatgctgc----tgcgatgtaaacttagtaagcttgttataaagtttctc-tgtggtccttaactgtttcattttttag
   | | || || ||||| ||||||| ||| ||||||||||| ||||| || || ||||| || || ||||| || ||||||||||| || |||||  |    || ||||       || ||  || |||    ||   |  ||| ||||      | |   || |||| || | |||| || | |    | |        
TGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAACACAATGAGATACATACTGTAAACATCAAGAGTGTGGGCGCAGATGAGgtttggggtttaacacttttacattgttgccttgtgtatttgaaaattagctcatgtttggcaatgtttatcatttggttctgagcctacttag-------

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: AT3G15980.5 (Arabidopsis thaliana), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctgctgcgatgtaaacttagtaagcttgttataaagtttctctgtggtccttaactgtttcat--tttttag
| ||||||| ||||||||||| || || |||||||| |||||||| |||||||||||||| ||||| |  || ||||| ||| |||||||||   | |||||     |  |        ||  ||   | |    |  | || | ||         |   || |     |  ||||  | ||  |||| ||
AATTCCTGTCGCTAGCATGGACAGTAGCGGAAAAATCATATGGGCTAAGCATAATGAAATTCAAACCGCAAACATCAAAAGTATTGGTGCAGGTTACGAGgtctagctcctaattgtaactcttgtattctggcatgggaaaacctg---cgtgactcagctatttatttgtactgcctgatgattttaag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctgctgcgatgtaaacttagtaagcttg--ttataaag---tttctctgtggtccttaactgtttcattttttag--------------
| ||||||| ||||||||||| || || |||||||| |||||||| |||||||||||||| ||||| |  || ||||| ||| |||||||||   | |||||     |  |        ||  ||   | |    |  | || | ||  | |   ||   ||| | |||  | | | |   ||| |   |||                
AATTCCTGTCGCTAGCATGGACAGTAGCGGAAAAATCATATGGGCTAAGCATAATGAAATTCAAACCGCAAACATCAAAAGTATTGGTGCAGGTTACGAGgtctagctcctaattgtaactcttgtattctggcatgggaaaacctgcgtgactcagctatttatttgtactgcctgatgattttaagctttcatctctctaccttag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgtt---gcctttgttcaccatgctgctgcgatgtaaacttagta----agcttgttataaagtttctctgtggtccttaactgtttcattttttag--------
||| ||||| || || ||||| | |||||||||||| |||||||| |||||||||||||| || ||||| ||||| |||||||| || |||||   |||||||    | |   |||| | |  |       ||   || |   |    |||||    | |    ||  |  ||| |  |  | |||| |    |          
AGTGCCTGTGGCAAGTATGGACAACAGTGGAAAAATAATATGGGCTAAGCATAATGAAATTCAGACTGTGAATATAAAGAGTGTGGGAGCAGATTTTGAGgtttgaacttaaattcagcttattctcattttggttacatgacattgaagcttaa-gtgagaaatccttaaggttcacatttctttcttgccatgccttctcag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: PP1S79_180V6.2 (Physcomitrella patens), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgt------tgcctttgttcaccatgctgctgcgatgtaaacttagtaa-gcttgttataaagtttctctgtggtccttaactgttt--cattttttag-----------------------------------------------------------------------
 |  || ||||||||||||||| | ||||| ||||| ||||||||||| || |||||||| || ||||| ||| |||||   |||||||| ||    |||||      | |   |||| |  |    | | | |  |||| |||||     ||||| || | ||||| |   || |     |  ||  ||||   ||                                                                        
GGCACCAGTTGCTAGCATGGATGGTAGTGGTAAAATCATATGGGCAAAACACAATGAAATACAGACTGTCAATGTCAAGGCAGTTGGTGCTGATTTCGAGgtggcgcctactcctgtttaaaaattagattcaa-ataaagttagttgtatttgttttatactttctttcctgtgcaatgttagttatcattagctatatttagaactatcatgtagtaatatcaaataactgaagctttttcatgtttttatttttatttttgtgcag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 10
lower sequence: PP1S243_63V6.1 (Physcomitrella patens), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctgctgcgatgtaaacttagtaagcttgttataaagtttctctgtggtccttaactgtttcattttttag-----
 |  || ||||| ||||||||| ||||||| |||||||||||||||||||| |||||||| || || || || ||||||   ||||| || ||   |||||| |    ||      || ||     ||   || ||||  |   |||||  |   | |   | |     |||| ||  | | |||||       
GGCACCAGTTGCCAGCATGGATGGCAGTGGGAAAATTATATGGGCAAAGCACAATGAAATACAGACGGTCAACATCAAGGCGGTTGGCGCTGATTTTGAGgtggatactg------attctttcatgagagaagcttaacacatttgttgca---tctgcgtctaagttttaaatgaatgagttttttctgcag

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|60341035|gb|DN208008.1|DN208008
EST:     ATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAG                         ATCGCAGATGGTGATCGGTTACCGTTGGCCGTGAAGGAGTTGGGAAGCTGT
genomic: ATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttg ... cattttttagATCGCAGATGGTGATCGGTTACCGTTGGCCGTGAAGGAGTTGGGAAGCTGT
EST: gi|93016009|gb|EB641529.1|EB641529
EST:     ATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAG                         ATCGCAGATGGTGATCGGTTACCGTTGGCCGTGAAGGAGTTGGGAAGCTGT
genomic: ATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttg ... cattttttagATCGCAGATGGTGATCGGTTACCGTTGGCCGTGAAGGAGTTGGGAAGCTGT
EST: gi|32928123|gb|CF032935.1|CF032935
EST:     ATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAG                         ATCGCAGATGGTGATCGGTTACCGTTGGCCGTGAAGGAGTTGGGAAGCTGT
genomic: ATAATGAAATCCAAACTGTTAATATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttg ... cattttttagATCGCAGATGGTGATCGGTTACCGTTGGCCGTGAAGGAGTTGGGAAGCTGT