Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcagtcgccaatcatttttccatatgtatagctgcctaggttctatgcttgctagaagaaaatgctgaagatacaactgcagtgtgttacctgtttctcataaaagctttagagctgacaataacattgagctttcttaatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTGCATTCTCTTGCTAATGGCCCAGAG

Basic information

species Zea mays
transcript GRMZM2G070422_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g23810.2 (Oryza sativa), 3'ss of exon 6
gtatgcagtcgccaatcattt--ttccatatgtatagctgcctaggttctatgcttgctagaagaaaatgctgaagatacaactgcagtg--tgttacctgtttctcataaaagctttagagctgacaataacattgagctttcttaatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTGCATTCTCTTGCTAATGGCCCAGAG
|| || ||  || |  |||||  |||||||||| || |    |    |   ||  ||    || | ||   |         | | || |   | | |   | || |  |  ||||||| |||||   | |||  |    || | || |||| | ||||||||| ||| ||||| | |||||| |||||||||||||||||  | ||||||||||| |||||||| ||||||
gtgtgtagatgcaatccatttcattccatatgtctacccagttgatatacttgggtgtgcaaaaacaacattaggcgcgtta-tacaatttctataattggattgttttttaagcttttgagctttgactaaactactcctatttttatttgatagGAAGTTGCTGAGTCAGTCAAGAATGACTTTGGCAGCATTGACATTTTGGTGCATTCTCTAGCTAATGGTCCAGAG

upper sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA18G31780.1 (Glycine max), 3'ss of exon 5
gtatgcagtcgccaatcatttttccatatgtatagctgcctaggttctatgcttgctagaagaaaatgctgaagatacaactgcagtgtgttacctgtttctcataaaagctttagagctgacaataacattgagctttcttaatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTGCATTCTCTTGCTAATGGCCCAGAG
                                          | | |  || ||  ||| |   | |     |  |    || |||| |||     |||    | |  |||| ||   || |   ||   |     ||  || | || | ||||||||| |||||| || | ||| ||||||||||  || |||||||| ||||| || ||||||||||| ||||||
-----------------------------------------ggatgcattgtttagtagcatttactttgtgatctgtgtct-cagtttgt-----gttgtaaagactagctgta---ctcagtctactgt--gatttgttttacttcatagGAAGTTGCTGAATCTGTCAAGAAAGATTTTGGCACTATCGACATACTTGTGCACTCGCTTGCTAATGGACCAGAG

upper sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA08G45990.1 (Glycine max), 3'ss of exon 6
gtatgcagtcgccaatcatttttccatatgtatagctgcctaggttctatgcttgctagaagaaaatgctgaagatacaactgcagtgtgttacctgtttctcataaaagctttagagctgacaataac------attgagcttt-cttaatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTGCATTCTCTTGCTAATGGCCCAGAG
                                                          | |   | || | | | | ||  | |  |||| |   ||| ||   |      || |   ||  |  ||        | || | |||  || |  | | ||||||||| |||||| || | ||| ||||||||||  || |||||||| ||||| || ||||||||||| ||||||
----------------------------------------------------------ggatgcattgttta-gttgcatttactttgtgatctgtgtctcagtttgtgttttaaagactagctgtactcagtctactgtgatttgttttaccttatagGAAGTTGCTGAATCTGTCAAGAAGGATTTTGGCACTATCGACATACTTGTGCACTCGCTTGCTAATGGACCAGAG

upper sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 6
lower sequence: AT2G05990.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatgcagtcgccaatcatttttccatatgtatagctgcctaggttctatgcttgctagaagaaaatgctgaagatacaactgcagtgtgttacctgtttctcataaaagctttagagctgacaataacattgagctttcttaatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTGCATTCTCTTGCTAATGGCCCAGAG
                                                        ||||  | |       | | ||  |||||   |   |  |||| ||| | || |||||                |||   || |||||   | ||||||| || |||||  ||||  || |||||||| ||||||||||| || || ||||| ||||| ||||||||||||
-----------------------------------------------------gtatagattagagatacacaaacacgcctgcaagttaacatgtgttactccttaatgcttt----------------ttg---ttgcttaa---atcagGAAGCTGCTGAATGTGTGAAAAAAGATTTTGGAAGCATTGACATTCTTGTCCATTCCCTTGCAAATGGCCCAGAG

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|67015153|gb|CO443902.1|CO443902
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|211267881|gb|FL003946.1|FL003946
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|32914780|gb|CF019592.1|CF019592
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|67017641|gb|CO446390.1|CO446390
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|211135434|gb|FL356365.1|FL356365
EST:     GTCAAATCGAACAAAAGATATGCANGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAA
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAA
EST: gi|31357208|gb|CD441565.1|CD441565
EST:     GATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|31362224|gb|CD446581.1|CD446581
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|67042246|gb|CO468501.1|CO468501
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|31356384|gb|CD440741.1|CD440741
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|84980240|gb|DW530589.1|DW530589
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|6526869|gb|AW216132.1|AW216132
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGNTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|211164083|gb|FL357846.1|FL357846
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTG
EST: gi|9254230|gb|BE344698.1|BE344698
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTATTT
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|31355683|gb|CD440040.1|CD440040
EST:     GTCTTTTTTAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|31361470|gb|CD445827.1|CD445827
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|6022101|gb|AW067029.1|AW067029
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCA
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCA
EST: gi|67018992|gb|CO447741.1|CO447741
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|24774154|gb|CA409408.1|CA409408
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTA
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTA
EST: gi|67019739|gb|CO448488.1|CO448488
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|13150169|gb|BG320491.1|BG320491
EST:     ATGTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: ATGTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|211391003|gb|FL321745.1|FL321745
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGCCAGTAAAAG                         GAAGTTGTTGAATCAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAA-Ggtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTG
EST: gi|31353471|gb|CD437828.1|CD437828
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|7162427|gb|AW520049.1|AW520049
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|111990916|gb|EE332354.1|EE332354
EST:     TATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: TATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|71766309|gb|DR964246.1|DR964246
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|31354494|gb|CD438851.1|CD438851
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|24774062|gb|CA409316.1|CA409316
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|32908050|gb|CF012863.1|CF012863
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|211267880|gb|FL003945.1|FL003945
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
EST: gi|24774150|gb|CA409404.1|CA409404
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACT
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACT
EST: gi|78023662|gb|DV492049.1|DV492049
EST:     GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAG                         GAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG
genomic: GTCAAATCGAACAAAAGATATGCAGGGGCATCAAACTGGACAGTAAAGgtatgcagtc ... aatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctcataaaagctttagagctgacaataacattgagctttcttaatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTGCATTCTCTTGCTAATGGCCCAGAG
                                      ctttctta  CT-rich tract
                                       tttcttaatttaaca  TA-rich tract