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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaatttctcgttttcctctttgctagccttaacgagcaattttctttacttgaaatttctag

Basic information

species Zea mays
transcript GRMZM2G443953_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 6
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaatttctcgttttc-----ctctttgctagccttaacgagcaattttctttacttgaaatttctag---
 || || |||||||| || ||||| |||||||||||||| |||||||| || ||||||||||| || ||||| ||||| ||||||||||| ||  |||||||||||   | |  ||  |  |  ||   |  |    | ||  ||  |  ||| |     |   |    |   ||||  || ||| |  |    ||    ||||| |   
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatacatgtgttcttcttgctagttgtgtcctg-cattttctttgtttatttccaaacacctatgataaaaattaaaaagtaatgtattaatgttatcttttcttgcag

upper sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaatttctcgttttcctctttgctagccttaacgagcaattttctttacttgaaatttctag
 || || ||||| ||||| ||||| |||||||||||||| |||||||| |||||||||||||| || ||||||||||| ||||||||||| ||  |||||||| |   || |  ||  |  || ||   |  ||   ||| |     |  |   ||| ||  ||   |||  |                             
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttcctggttgtttcctatgatataatgcattaatgcacctgttgtcttctcttttcag---------------------------

upper sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 6
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttt---------tattttgtttt------aatgataatgtattaatttctcgttttcctctttgctagcct-taacga-gcaattttctttacttgaaatttctag
 || || ||||| || || ||||| |||||||||||||| |||||||| |||||||||||||| || ||||| ||||| ||||||||||| ||  ||||||| ||   || |  ||         | |||  ||||      ||  | || |||  ||       | |    || || ||   |  |  || |||| | |  | |  |    |||  ||
CCAGATATTTGAAGGTCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCAAGTGCATCTCTTGATCGGACAATAAAGgtgtaattatgttcttgttcctggatgtttcttttttaaaaaaaaaaaaaagtaaaaagaaaaactatgatcctatgatataatgcattgatgcaactgttatcatctc---ttttcag

upper sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 6
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaatttctcgttttcc-----tctttgctagcc-ttaacgagcaattttct----ttacttgaaatttctag
 || || |||||||| || ||||| |||||||||||||| |||||||| || ||||||||||| || ||||| ||||| ||||||||||| ||  ||||||||||  ||| |||| |  |   |  |  ||        ||  ||| |   |||||     ||| || ||    || |  || ||| |  |    |||  |  |||| |   
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatatacatgtgttcttctcgctagttgtgtcctgaattttctttgtttatttccatacatctatgataaaaatttaaaagtaatgtattaatgttatcttcaattgcag-

upper sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaattt-ctcgttttcctctttgctagccttaacgagcaattttctttacttgaaatttctag
||| || || ||||| ||||| |||||||| ||||||||||||||||| || |||||||| || |||||||| ||||| || |||||||||||  |||||||   |  | ||| | ||   |      || || |||  ||| |   ||   |   ||| ||    |  |  | |     |  |||| |              
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgt--gctgaaatggtctaacattgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatgcatgttcatcttcag-------------

upper sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 10
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaatttctcgttttcctctttgctagccttaacgagcaattttctttacttgaaatttctag-------
||||||||| || ||||| || || ||||| ||||||||||| || |||||||||||||| ||||||||||||||||| || ||||| |||||  |||| |||     |    |    ||||   |||    |  |   || ||| |   ||| ||  | ||  |  ||||||      ||| || ||  |  |  || |         
TCAAATTTTCGAAGGCCATTCCCATTATGTTATGCAAGTCACTTTCAACCCCAAAGACACCAATACTTTTGCTAGTGCATCCCTTGACCGTACCATAAAAgtaagattagtcttcaacttttaagttacaccttcttctttcattcccaatttcccattatgagaagcttaacatttgttttcctgtatctacatcttttcttacctag

upper sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaattt-ctcgttttcctctttgctagccttaacgag--caattttctttacttgaaatttctag
||| || |||||||| || || |||||||| ||||||||   |||||| || ||||| || || |||||||| |||||||| |||||||||||  ||||||| |    | | ||   |       | |    | |||  ||| ||  | ||   | || ||     |  ||    ||   ||||||| |   |    || |  ||
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgta-agaggtccaagcac---tgagcttttatggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag

upper sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 6
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataa-tgtattaatttctcgttttcctctttgctagccttaacgagcaattt-tctttacttgaaatttctag------
||| || ||||||||||||||||| ||||| |||||||| |||||||| || ||||| || || |||||||||||||| ||||| ||||| ||  | |||||||   | |   |||| | |||      || ||| || |||  |||  |  |||    |   | ||  | |  | || |||| |  |    ||| || ||         
TCAGATCTTTGAGGGCCACTCTCATTATGTGATGCAAGTGACATTTAATCCAAAAGATACCAACACTTTTGCTAGTGCATCTCTGGATCGCACCATTAAGgtatgatc-tggattttctgttggcaacttgttaactgcatttttttaccaattttgcttcatcaagtatgagtgtgctatttatgctctgatgatatctccttttccag

upper sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
lower sequence: PP1S79_180V6.2 (Physcomitrella patens), 5'ss of exon 6
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgta---tacccatatgttttat--tttgttttaatg-ataatgtattaatttctcgttttcctctttgctagccttaacga-gcaattttctttacttgaaatttctag-------------------------------------------------------------------------------------
||||||||| || || |||||||| |||||||||||||| || ||||| ||||||||||  || || ||||| ||||||||| | ||||| ||||| |||||    ||||  |  |||   |  ||| ||||  || |  ||    |   ||    | || |    |  |||  ||    | || | |  ||||||   | ||| | ||                                                                                     
TCAAATTTTCGAAGGGCACTCTCATTATGTCATGCAAGTAACGTTTAATCCCAAAGACAGCAACACCTTTGCAAGTGCTTCTTTGGATCGAACTGTGAAGgtgaggtaccagttggttccgtcgtttatttttctgcagtattagctgtcttgaaatattacaaaatcatagggttccttatgctaatagctttaccccatatt-caagcaacgaagttcaactgatgtaagattgtcttccaagacaatagaacaaaacgatggcttaattgtatggactgtctttttaacag

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|71449170|gb|DR830220.1|DR830220
EST:     CCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAG                         ATTTGGAGTCTTGGTTCCCCTGATCCTAATTTCACATTGGATGGTCATTCA
genomic: CCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccat ... aaatttctagATTTGGAGTCTTGGTTCCCCTGATCCTAATTTCACATTGGATGGTCATTCA