Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtatgtgcttcaattccagtgtttcattacaattgatcttttcatgaatttgcatggactaaaaatgtttctatggcag

Basic information

species Zea mays
transcript GRMZM2G307252_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os09g17840.1 (Oryza sativa), 5'ss of exon 3
TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtatgtgcttcaattccagtg-tttcattacaattgat----cttttcatgaatttgcatgg--actaaaaatgtttctatggcag---------------
 || || ||||||||||| ||||| ||||||||||| ||||| |||||||| |||||||||||||||||||| |||||||||||||| |||||||| |||||  |||||  ||||  ||||  || | ||  ||| |     ||   || |  ||  ||||   ||| |  | ||||  |                     
GGGGCAGCAAGGCTCATATCCAATTAAGTTGTTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTACTTCATATCACAGgtgcgtgctgtaattgtagtggctttagtaatatttacatgactgagcaagttttaacatgataactgagcaagttttaacatatatttattttgttgcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os09g17830.1 (Oryza sativa), 5'ss of exon 3
TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtatgtgcttcaattccagtgtttcattacaattgatctt-ttcatgaatttgcatggactaaaaatgtttctatggcag
 || || ||||||||||| ||||| ||||||||||| ||||| |||||||| |||||||||||||||||||| |||||||||||||| |||||||| |||||  ||||   | ||  ||||   || ||  ||| |  ||  | || || ||   |  ||      |  || | | ||||
GGGGCAGCAAGGCTCATATCCAATTAAGTTGTTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTACTTCATATCACAGgtgcgtgcggta-ttgtagtgccgcagtaatatttacattactgatcaagttt--ttaacatgtttttattttgttgcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA13G34370.1 (Glycine max), 5'ss of exon 4
TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtatgtgcttcaattccagtgtttcattacaattgatcttttcatgaatttgcatggactaaaaatgtt-tctatggcag--------
||| || || || ||||| |||||||| ||||| ||||| ||||||||||| |||||||| || ||||| ||  || |||| ||||| ||||| |||||||||      | ||      || |   ||  | || || ||||  || ||||   ||   ||| | | |  | |||   |         
TGGACAGCAGGGTTCATATCCAATCAAATTGTTTTATACCTCCAACATGCCCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaa-----ttaagctgtatgataggttggacttaatgtttt--tggatttat-tgttttaacagtctaatttattctacttgttcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT1G78720.1 (Arabidopsis thaliana), 5'ss of exon 3
TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtatgtgcttcaa-------ttccagtgtttcattacaattgat-cttttcatgaatttgcatggactaaaaatgtttctatggcag
||| |||| |||||| || || ||||| |||||||| || |||||||||||||||||  |||| || || ||  || ||||  |||| ||||| || |||||||     |  |       ||  | | | |  |||  |||||  || || ||   |    | |   | ||  ||||||||| |   
TGGACAACGAGGCTCTTATCCTATCAAATTGTTCTACACCTCCAACATGCCTATCATCTTGCAGTCAGCTCTTGTTTCCAATATCTACTTCATCTCTCAGgtatcaatctacacatagtctttaaatctgtacttaatattgaagctctttatacttaaaaacgttgtgaatctgtttctatag---

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtat--gtgcttcaattcca-gtgtttcattacaattgatcttttcatgaatttgcatggactaaaaatgtttctatggcag
||| || || || ||||| || |||||| ||||||| || ||||||||||| |||||||| || ||||| ||  |||||||||| || || ||||||||||||   | |||| ||       |       |     | || || |  ||   ||  |   ||   || | | | | |  |||
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagctttaagcttgtatacacaggttggggtcattttcttctggtgttatactaac---aattttatttcttacag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv18s0076g00240.t01 (Vitis vinifera), 5'ss of exon 1
TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgta--tgtgcttcaa--ttccagtgtttcattacaattgatcttttcatgaatttgcatggactaaaaatgtttctatggcag
||| |||||||| ||||| || || ||||||||||| || ||||||||||| |||||||| || | ||| ||  || ||||| | || || |||||| |||||  || |||| ||  ||  |    |  ||| || |  || || |  ||   ||  |   || |      ||  ||| |   
TGGACAACAAGGTTCATATCCTATTAAGTTGTTCTACACCTCCAACATGCCCATCATTCTACAATTTGCTCTTGTTTCCAACATTTACTTTATATCCTAGgtacttgagctttaagcttgtatacatgaattgcagtc-attttcttctggtgttatactaacaattttatttcttatag---

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S114_48V6.1 (Physcomitrella patens), 5'ss of exon 4
TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtatgtgcttcaattccagt-----gtttcattacaattgatcttttcatgaatttgcatggactaaaaatgtttctatggcag--------
 ||||||||||| || ||||| || ||||||||||| || ||||||||||| |||||||| ||    || ||  |  ||||| | || ||||| || |||||  |    ||  |||  ||     ||  ||||    |  |    |||   ||   |  |  ||| |   || || | |    |        
CGGTCAACAAGGATCTTACCCTATTAAGTTGTTCTACACCTCCAACATGCCCATCATTCTCCAGAGCGCCCTTGTCTCCAACTTGTACTTCATTTCACAGgttcgcctctctgttcttgttgactgtcgcattcgtgtcaagtaattctgaaagacgtgtctactcact-tgcttttgtttgtgtgttccag

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|6952459|gb|AW424527.1|AW424527
EST:     CTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAG                         CTTCTCTACAGGAAATACAGNGGAAATTTCCTTGNCAATCTTCTTGGGAAA
genomic: CTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtatgtgctt ... tctatggcagCTTCTCTACAGGAAATACAGTGGAAATTTCCTTGTTAACCTTCTTGGGAAA
EST: gi|32807859|gb|CD960093.1|CD960093
EST:     CTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCACATCCCAG                         CTCCTCTACAGGAAATACAGTGGAAATTTCCTGGTTA
genomic: CTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtatgtgctt ... tctatggcagCTTCTCTACAGGAAATACAGTGGAAATTTCCTTGTTA