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'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaaataagggggagatgatactactaaacgtgtatgctttacttcattcttcgtaacctcgtgcttgtcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGATTGTGCCCTGGACTTAATACTGTGATTAGGGAAATTGTATGTGGCTTAT

Basic information

species Zea mays
transcript GRMZM2G443985_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G443985_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 3'ss of exon 4
gtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaaataagggggagatgatactactaaacgtgtatgctttacttcattcttcgtaacctcgtgcttgtcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGATTGTGCCCTGGACTTAATACTGTGATTAGGGAAATTGTATGTGGCTTAT
                                       || | ||  | | | | |        | | || | |||    | |        ||| || ||  | || || |  |  || || | |||| | ||||||| ||||||||||||| |||||||||||||| ||||||||| ||||||||||||| || ||||| |||||||||||||||||||||||||
--------------------------------------gtatataacattgtattcatatac---taacacaaataagttggaaaaaaactattctttttttctcacttcatattattcctggtcagGTGTTTTTTGAATCGGATGAGGTCCATGCATGCATTGTCACATGTGGAGGACTGTGCCCTGGACTGAACACTGTCATTAGGGAAATTGTATGTGGCTTAT

upper sequence: GRMZM2G443985_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 4
gtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaa-ataagggggagatgatactactaaacgtgtat---gctttacttc-attcttcgtaacctcgtgcttgtcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGATTGTGCCCTGGACTTAATACTGTGATTAGGGAAATTGTATGTGGCTTAT
              | ||||  |   | ||||  |   ||| | |   || |  || | |     |  ||| ||  ||| || ||      |||  ||| | ||  |   ||||  | | | |  |||| ||||||| ||| || ||||||| || || |||||||||||||| ||||| ||| | |||||||| || || ||||| || ||||||||||| |||||  | |
-------------gtcatttcccttgt-ttgtctgtgcatatatattatatattattaagaactaagaatattaaaaaatgtataattaattttgtttccactcaccaacacctaat-catatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT

upper sequence: GRMZM2G443985_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 3
-gtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaaataagggggagatgatactactaaacgtgtatgctttacttcattcttcgtaacctcgtgcttgtcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGATTGTGCCCTGGACTTAATACTGTGATTAGGGAAATTGTATGTGGCTTAT
   || |      | ||  | | || ||||| ||   || ||| ||   ||  ||||      | ||| ||  | |||   |||||          | ||  |   ||||  | | | |  |||| ||||||| ||| || ||||||| || || |||||||||||||| ||||| ||| | |||||||| || || ||||| || ||||||||||| |||||  | |
gtcatttcccttgtttgtctgtgcgtatattatatattattaagaa--ttaagaatatta--aaaatg-tataattaattttgtat--------caactcaccaacacctaat-catatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT

upper sequence: GRMZM2G443985_T04 (Zea mays), 3'ss of exon 4
lower sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 4
gtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaaataagggggagatgatactactaaacgtgtatgctttacttcattcttcgtaacctcgtgcttgtcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGATTGTGCCCTGGACTTAATACTGTGATTAGGGAAATTGTATGTGGCTTAT
              | | | || |  | || ||  |     |   |  | ||||| |     |||  |||         |  | |   |||    ||||||       | | | ||   || |  |||| ||||||||  | ||||| || || ||||| ||||| || ||||| || || |||||||| || || || |||||||||||||| |||||||||||  
-------------gtaagtctttgtttgttatattc-----atggaatttgaaatgataaa-agacaata---------ggttttctcttaacatattctt-------ttgggttt---ttttccagGTGTATTTTGAGTCTGATGAAGTTCATGCATGTATTGTGACATGTGGTGGTTTATGCCCTGGCCTCAACACAGTGATTAGGGAAATAGTATGTGGCTTGA

upper sequence: GRMZM2G443985_T04 (Zea mays), 3'ss of exon 4
lower sequence: PP1S81_165V6.4 (Physcomitrella patens), 3'ss of exon 5
gtatatgaaccttatgatttttcgcat-attgtacgctaataaaaaagctagaaataagggggagatgatactactaaacg--tgtatgctttacttcattcttcgtaacctcgtg-----cttgtcttgttt--agGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGATTGTGCCCTGGACTTAATACTGTGATTAGGGAAATTGTATGTGGCTTAT
||   | |     || | | ||| | | ||| |  | ||||   ||   || | |  | |   |  |  |   |  ||  |  | | |   | |||||    || |  |  |||||     |||  |||||    || |||| ||  |  |||| || ||  | ||||||||||| |||||||||||||| ||||| ||| | |||||||||||| | || ||||| |||||  | |
gttcttaatatccattactcttctcttgatttttaggtaatttgaa---tacataccaagctaatttactgtcaagaagtgcctttttaagtgacttccacttttgacatttcgtgacactctttccttgtccgcagATATACTTCCAGTCGGAGGATGTGAAGGCATGCATTGTAACTTGTGGAGGATTATGCCCCGGAATCAATACTGTGATTCGTGAGATTGTCTGTGGTCTGT

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|148972520|gb|EE023481.2|EE023481
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|211132977|gb|FL170882.1|FL170882
EST:     AGGATGGGCCCAGAGGGAACCACTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCAGATGAGGTCCATGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|13557855|gb|BG549211.1|BG549211
EST:     CCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: CCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|211132967|gb|FL170872.1|FL170872
EST:     AGGATGGGCCCAGAGGGAACCACTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCAGATGAGGTCCATGCATGCAT
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actaaacgtgtatgctttacttcattcttcgtaacctcgtgcttgtcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGATTGTGCCCTGGACTTAATACTGTGATTAGGGAAATTGTATGTGGCTTAT
                                         cttgtctt  CT-rich tract
               tttactt  TA-rich tract