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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctattatgatgtaaacttagtaagcttgttataaggtttctctgtggtccttaattgtttcattttttag

Basic information

species Zea mays
transcript GRMZM2G124886_T02
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctattatgatgtaaacttagtaagcttgttataaggtttctctgtggtccttaattgtttcattttttag
||||||||||||||||||||| |||||||||||||| |||||| |||| ||||||||||||||||||||||| ||||||| | ||||||||||||||||||||  ||| ||||||||||||| |||| || ||||||    |  || ||||| |  || | |      || |  |||| ||||||| ||
AGTTCCTGTTGCTAGCATGGACAGCAGTGGAAAAATCATATGGTCAAAACATAATGAAATCCAAACTGTTAATATCAAGACTATTGGTGCAGACAATGAGgttttctt-gttcaccatgctaatatgttgaaaacttgtatactttcttatacgtcttgttta-----ctaacctgttccatttttcag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 5'ss of exon 1
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctattatgatgtaaacttagtaagcttgttataaggtttctctgtggtccttaattgtttcattttttag
||||||||||||||||||||| |||||||||||||| |||||| |||| ||||||||||||||||||||||| ||||||| | ||||||||||||||||||||   | |||||||||||||| |||| || ||||||   |  |||  |   | ||     |    |||| |  ||||  |||||| ||
AGTTCCTGTTGCTAGCATGGACAGCAGTGGAAAAATCATATGGTCAAAACATAATGAAATCCAAACTGTTAATATCAAGACTATTGGTGCAGACAATGAGgtt--ttctgttcaccatgctaatatgttgaaaacttgtaatactttcttatacgtcatgtt----tcctaacctgttctatttttcag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgtt--gcctttgttcaccatgctattat----gatgtaaacttagtaagcttg---ttataaggtttctctgtggtccttaattgtttcattttttag---------
||||||||| ||||||||||| | ||| || |||||||| ||| | |||||||||||||| || ||||| || || || ||||| || |||||    |||||   | || ||||   | |  | || |    | |||| | || |  |||  |   |  |||| | ||| | |  |   | |    | ||  |  ||          
AGTTCCTGTGGCTAGCATGGACAACAGCGGGAAAATTATTTGGTCTAAGCATAATGAAATTCAGACTGTCAATATAAAAAGTGTAGGAGCAGATGTAGAGgtatgggctctgttattcctttttttttttgggctgtataatttgcgagcaagaagtgttaagttctctttatttttagtgacatgtgcaagtactatgcttcttag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgt-tgcctttgttcaccatgctattatgatgtaaacttagtaagcttgt-tataaggtttctct-gtggtcctt--aattgtttcattttttag
||  ||||| || |||||||||| |||||| ||||| || ||||| |||||||||||||| |||||||| || || | |||||| || |||||    ||||| ||   |  ||    |  || ||     ||  | |  ||||||     |  ||  || || | |||   | |  || | ||   ||||||||
AGAACCTGTAGCCAGCATGGATAACAGTGGGAAAATAATTTGGGCTAAGCATAATGAAATTCAAACTGTCAATATAAGGAGTGTAGGAGCAGATGTGGAGgtatgggctcattt-ttaccctttttgtccgtgtaatatgtaagcaaaagtggaaacttgctttagtgacacatgcaagtattatgttttttag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgtt---gcctttgttcaccatgctattatgatgtaaactt--agtaagcttgttataaggtttctctgtggtccttaattgtttcattttttag
||  ||||| || |||||||||| |||||| ||||| || ||||| |||||||||||||| |||||||| || || |  ||||| || |||||    |||||    ||   | || ||| |  | |     | |||  |   || ||   ||  |    | ||   ||        || |  |   ||||||||
AGAACCTGTAGCCAGCATGGATAACAGTGGGAAAATAATTTGGGCTAAGCATAATGAAATTCAAACTGTCAATATAAGAAGTGTAGGAGCAGATGTGGAGgtatgggctcatttttacctttttttatccgtctaatatgtaagcaaaagtggaaacttgctttagtgacacatgcaagtactatgttttttag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgtt--gcctttgttcaccatgctattatgatgtaaacttagtaagcttg---ttataaggtttctctgt---------ggtccttaattgtttcattttttag
||| ||||| ||||||||||| | |||||| |||||||| ||| | |||||||||||||| || ||||| || || || ||||| || |||||    |||||   | || | ||   |||  | ||  | |||| | || |  |||  |   |  |||| | ||| | |         | |   ||| |  |    || ||||
AGTACCTGTGGCTAGCATGGACAACAGTGGGAAAATTATTTGGTCTAAGCATAATGAAATTCAGACTGTCAATATAAAAAGTGTAGGAGCAGATGTAGAGgtatgggctctattattcatttttttg-gctgtataatttgcgagcaagaagtgttaagttctctttatttttagtgagatgtgtaagtactatgcttcttag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgt---tgcctttgttc--accatgctattatgatgtaaacttagtaagcttgttataaggtttctctgtggtccttaatt---gtttcattttttag
| ||||||| ||||||||||| |  |  |||||||| |||||||| |||||||||||||| |||||||  |||||||| ||| ||||||||||  | |||||    ||| |  ||   ||  |  || | ||   ||   | |   |  ||||| |  | |||     || |  | | ||   |||   |   ||||
AATTCCTGTCGCTAGCATGGACAATACCGGAAAAATCATATGGGCTAAGCATAATGAAATTCAAACTGCAAACATCAAAAGTATTGGTGCAGATTACGAGgtacacgccatacttgtaactcttatactgtggcataggatgaccta-tttgttttttgtttttcgcctgatgataagtttttgttctgtaacttag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 14
---AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAA----TGAGgtt--gcctttgttcaccatgctattatg-atgt-aaacttagtaagcttgttataaggtttctc-tgtggtccttaattgtttcattttttag
   | | || || ||||| ||||||| ||| ||||||||||| ||||| || || ||||| || || ||||| |||||||||||||| || |||||  |    || ||||   |  || | ||   |    || || || | ||| ||||      | |   || |||| || | |||| || |      | |        
TGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAACACAATGAGATACATACTGTAAACATCAAGAGTGTGGGCGCAGATGAGgtttggggtttaacacttttacattgttgccttgtgtatttgaaaattagctcatgtttggcaatgtttatcatttggttctgagcctacttag-------

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: AT3G15980.5 (Arabidopsis thaliana), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctattatgatgtaaacttagtaagcttgttataaggtttctctgtggtccttaattgtttcat--tttttag
| ||||||| ||||||||||| || || |||||||| |||||||| |||||||||||||| ||||| |  |||||||| ||| |||||||||   | |||||     |  |        || || |  | |    |  | || | ||      |  |   || |     |  | ||  | ||  |||| ||
AATTCCTGTCGCTAGCATGGACAGTAGCGGAAAAATCATATGGGCTAAGCATAATGAAATTCAAACCGCAAACATCAAAAGTATTGGTGCAGGTTACGAGgtctagctcctaattgtaactcttgtattctggcatgggaaaacctg---cgtgactcagctatttatttgtactgcctgatgattttaag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgtt--gcctttgttcaccatgct---attatgatgtaaacttagtaagcttgttataaggtttctctgtggtccttaattgtttcattttttag--------------
| ||||||| ||||||||||| || || |||||||| |||||||| |||||||||||||| ||||| |  |||||||| ||| |||||||||   | |||||   ||   |  |    |  ||   ||| ||   |      |      |   |      ||| | |||  | | | ||  ||| |   |||                
AATTCCTGTCGCTAGCATGGACAGTAGCGGAAAAATCATATGGGCTAAGCATAATGAAATTCAAACCGCAAACATCAAAAGTATTGGTGCAGGTTACGAGgtctagctcctaattgtaactcttgtattctggcatgggaaaacctgcgtgactcagctatttatttgtactgcctgatgattttaagctttcatctctctaccttag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgtt---gcctttgttcaccatgctattatgatgtaaacttagta----agcttgttataaggtttctctgtggtccttaattgtttcattttttag--------
||| ||||| || || ||||| | |||||||||||| |||||||| |||||||||||||| || ||||| || || |||||||| || |||||   |||||||    | |   |||| | |  | | ||  ||   || |   |    |||||    | ||   ||  |  ||| |  | || |||| |    |          
AGTGCCTGTGGCAAGTATGGACAACAGTGGAAAAATAATATGGGCTAAGCATAATGAAATTCAGACTGTGAATATAAAGAGTGTGGGAGCAGATTTTGAGgtttgaacttaaattcagcttattctcattttggttacatgacattgaagcttaa-gtgagaaatccttaaggttcacatttctttcttgccatgccttctcag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: PP1S79_180V6.2 (Physcomitrella patens), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccat-----gctattatgatgtaaacttagtaa-gcttgttataaggtttctctgtggtccttaattgttt--cattttttag-----------------------------------------------------------------------
 |  || ||||||||||||||| | ||||| ||||| ||||||||||| || |||||||| || ||||| ||  |||||   |||||||| ||    ||||| ||   |  ||    |       ||   | |  |||| |||||     ||||| ||   ||||| |   || |    ||  ||  ||||   ||                                                                        
GGCACCAGTTGCTAGCATGGATGGTAGTGGTAAAATCATATGGGCAAAACACAATGAAATACAGACTGTCAATGTCAAGGCAGTTGGTGCTGATTTCGAGgtggcgcctactcctgtttaaaaattagattcaaataaagttagttgtatttgttttatactttctttcctgtgcaatgttagttatcattagctatatttagaactatcatgtagtaatatcaaataactgaagctttttcatgtttttatttttatttttgtgcag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 10
lower sequence: PP1S243_63V6.1 (Physcomitrella patens), 5'ss of exon 10
AGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAGCATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttgttcaccatgctattatgatgtaaacttagtaagcttgttataaggtttctctgtggtccttaattgtttcattttttag-----
 |  || ||||| ||||||||| ||||||| |||||||||||||||||||| |||||||| || || || |||||||||   ||||| || ||   |||||| |    ||      || || | ||||   || ||||  |   |||||  |   | |   | |     |||| ||  | | |||||       
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|31355222|gb|CD439579.1|CD439579
EST:     ATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAG                         ATCGCAGATGGTGATCGGTTACTTTTGGCCGTGAAGGAGTTGGGAAGCTGT
genomic: ATAATGAAATCCAAACTGTTAACATCAAGAGTGTTGGTGCAGACAATGAGgttgcctttg ... cattttttagATCGCAGATGGTGATCGGTTACCATTGGCCGTGAAGGAGTTGGGAAGCTGT