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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacaatttttatttaactttttttctatcag

Basic information

species Zea mays
transcript GRMZM2G165357_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacaatttttatttaactttttttctatcag
|||||||||||| || |||||||||||||| |||||||| |||||||| |||||||| |||||||||||||| ||||||||||| |||||||  | ||||| | | | || |  | |  ||||    |   ||||| |||  ||  |   |||||| |||||    || | || | ||  ||   |||||
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttc-tatcacaaatacactacatttatcctatattttcttaatctag-tgcaaagttcacttac----ttgaattgatttacttc--atcag

upper sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA11G15020.1 (Glycine max), 5'ss of exon 7
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacaatttttatttaactttttttctatcag
||||||  | |||||||| ||||| || ||||| ||||| |||| |||||| ||| |||| | ||| ||||||||||| ||||| ||||||| ||   ||  |||     |     | ||| |   ||   ||    || ||  |||   | | |     | ||| | | |  |   |      ||    
GATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAGGCTATTGGGGCAATGTGAACCCTATTGgtacatgcttttctctttgtctcagtctgtatctttcttaaattaaattatatcttctgctatgattgtgaaaaatatctgtgcagtataaaccatagag-

upper sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA12G06990.1 (Glycine max), 5'ss of exon 7
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacaatttttattta-actttttttctatcag---
||||||  | |||||||| ||||| || ||||| ||||| |||| |||||| ||| ||||   ||| ||||||||||| ||||| ||||||| ||   ||  |||     |   ||| | ||| ||| || || |  ||||| |  ||  |  |||| |||  ||| | |   | |  | |    ||| |    
GATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGCTATTGGGGCAATGTGAACCCTATTGgtatatgcttttctctttgtctc--aatctgttt-cttgggcttct--taaatgaaattatatcttctgttatgattgtgaaagatatctgtgcagtataaacca

upper sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 6
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 7
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacaatttttatttaactttt----tttctatcag
||| ||| | |||||||| || ||||| ||||| ||||| ||||||||||| |||||||||  ||| ||||| ||||||||||| || ||||  ||||    | | |   ||    |   |||| |||   |||  | |||  |      ||        | |      |  ||   |      | |||||   
GATATTGCTTACATCAACTTCAGAAGTATATGGAGATCCTCTTGAGCATCCCCAAACTGAGAGCTATTGGGGAAATGTTAACCCAATAGgta--tttgcatctttcatggttttcttaggtttgttttttatttaaaaaaaaaaaaaggaaaagaaaagaaaagaaggaaaataggatgaaaaatctctat---

upper sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 6
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 7
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttg-ttcatctgaaaattgaaatttatt----tgctttg-gtttttcataaattatctttca-agttctcttaca----atttttatttaactttttttct-atcag------
|||| |  | || || ||||||||||||||||| |||||  | ||||||||||| || ||||  |||||||| || || ||||| ||||||||||     |||  | | |       |  |       ||| || |   ||  | || | |  | || | |  |  ||||    || ||   ||||| ||  ||||  ||        
GATTCTTCTCACGTCTACCTCTGAAGTTTATGGAGATCCTTTGGAGCATCCTCAGACAGAGGAATACTGGGGAAACGTAAACCCAATTGgtaaatccaactcacgttacacgcttggtgcaccatcacgctctgtgcagtttctgaactctgatacacaatcattctacacaaaatattaccttaacgttgcttcttgtcttgtgtag

upper sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 6
lower sequence: EFJ17446 (Selaginella moellendorffii), 5'ss of exon 6
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacaatttttatttaactttttttctatcag
|||| |  | || |||||||| ||||||||||| |||||||| |||||||| ||||  ||||  |||||||||||||| || || || ||||     || || | || | |||    || | | ||  |  |  ||||    |  |   ||                                       
GATTCTACTCACGTCAACCTCCGAAGTTTATGGGGATCCACTGGAGCATCCACAAAAGGAGGAATACTGGGGCAATGTGAATCCCATAGgta----cgtgcaccagatatttgt--cttgtctact--gcctgctcattg--tgccgagcag--------------------------------------

upper sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 6
lower sequence: EFJ35029 (Selaginella moellendorffii), 5'ss of exon 6
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacaatttttatttaactttttttctatcag
||||||  | || |||||||| ||||||||||| |||||||| |||||||| ||||  ||||  |||||||||||||| || || || ||||     || || | || | |||    || | | ||  |  |  ||||    | ||   ||                                       
GATTTTACTCACGTCAACCTCCGAAGTTTATGGGGATCCACTGGAGCATCCACAAAAGGAGGAATACTGGGGCAATGTGAATCCCATAGgta----cgtgcaccagatatttgt--cttgtctact--gcctgctcattg--tgtcaagcag--------------------------------------

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|149070503|gb|EE158907.2|EE158907
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|211182716|gb|FL410032.1|FL410032
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGGTA-GCGTGTAGCAGAGACGCTGATG
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGG-TAAGCGTGTAGCAGAGACGCTGATG
EST: gi|32838870|gb|CD978551.1|CD978551
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32850602|gb|CD990283.1|CD990283
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|149082965|gb|EE172201.2|EE172201
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|60394382|gb|DN227252.1|DN227252
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|149070980|gb|EE159385.2|EE159385
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|71444250|gb|DR825300.1|DR825300
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|60339871|gb|DN206844.1|DN206844
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|15100352|gb|BI396143.1|BI396143
EST:     ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG                         GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: ACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgt ... tttctatcagGTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT