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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAATTGATCTAATTGTTCAACATATTCGGACTAAACTTGGACAGCATGATCTTTGCAAAATACACCCCAATTTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaaaacattcatttttatttttctgaaaatttgtttgctgtttgattgtaaacggagaactgtagaggcattgatgcatagaggcatcat...

Basic information

species Zea mays
transcript GRMZM2G034143_T02
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os11g16370.1 (Oryza sativa), 5'ss of exon 8
GGCAATTGATCTAATTGTTCAACATATTCGGACTAAACTTGGACAGCATGATCTTTGCAAAATACACCCCAATTTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaa-----aacattc----atttttatttttctgaaaat--ttgtttgctgtttgattgta----aacggagaactgtagaggcattgatgcatagag---gcatcat-------------------------------------
 || |||||  |||| ||||| |||||||| ||||| ||||| || |||||||| || ||| ||||||||||||||||||| |||||||||||||||||||||||| ||||||     ||  |||     | |||  || | | | ||   |||| ||   |||||| ||     ||    |||    | | ||| |  | ||        | | |||                                     
TGCGATTGACTTAATCGTTCAGCATATTCGCACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacctgatgtaaccataaatgttctgcagtcttttcttatataagaacaattgtctgtcttttgatagtctcataatattgaatgtaatatgcactttttcaggatttttgtaacatatataaatattgacattgcaatgctgctttctttcag

upper sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
GGCAATTGATCTAATTGTTCAACATATTCGGACTAAACTTGGACAGCATGATCTTTGCAAAATACACCCCAATTTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaa-----aacattcatttttatttttctgaaaatttgtttgctgtttgattgt---aaacggagaactgtagaggcattgatgcatagag----gcatcat-------------------------------------
 ||||||||  |||| ||||| |||||||| ||||| ||||| || |||||||| || ||| ||||||||||||||||||| |||||||||||||||||||||| | |||| |     ||  | |     | ||||  |  |||   | ||| | ||||||  |   | |      | |||  | ||| | ||   | ||     | | | |                                     
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaattatttctggatttttgtagcgtatataaatattagcatttcaattcttctttctttcag

upper sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA14G01480.1 (Glycine max), 5'ss of exon 6
GGCAATTGATCTAATTGTTCAACATATTCGGACTAAACTTGGACAGCATGATCTTTGCAAAATACACCCCAATTTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaaaacattcatttttatttttc-tgaaaatttgtttgctgtttgattgtaaacggagaactgtagaggcattgatgcatagag----gcatcat----------------------
||| |||||| | ||||| ||||||||||| || || ||||| ||||||||  | || |||||| | || ||||| ||||| |||||| |||||| |||||||||   |       ||| ||  |  || |   | |     | ||  | |||    || ||      || |  |      ||  |  ||  |     | |||||                      
GGCTATTGATTTGATTGTACAACATATTCGCACGAAGCTTGGTCAGCATGACTTGTGTAAAATATATCCTAATTTATATGTCATTCAGTCTACTTTTCAGgtacccctttcttgttatttatggtctttatcaatcatcccatcttccccgttaatctggaacttccaaattcgatttttttttttttattaaaagttgaatcatcacgataattgcttcgatgcag

upper sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 8
GGCAATTGATCTAATTGTTCAACATATTCGGACTAAACTTGGACAGCATGATCTTTGCAAAATACACCCCAATTTGTATGTAATTCAGACTACTTATCAGgtacct---aatgta-aaacattcatttttatttttctgaaaattt---gtttgctgtttgattgtaaacggagaactgtagaggca-ttgatgc-atagaggcatcat
||| |||||| | ||||| || ||||| || || || ||||| |||||||| || || |||||| | || ||||||||||| |||||| | |||| |||||||||    ||| ||    | ||     |||| |  || | || |      ||    |||  |  | |  |   |||  |   |  | ||| | | ||  ||       
GGCCATTGATTTGATTGTACAGCATATCCGCACAAAGCTTGGTCAGCATGACCTGTGTAAAATATATCCTAATTTGTATGTCATTCAGTCAACTTTTCAGgtaccctgcaatttatgggccttttcaattatctcacttagaactccaaacttttgattttgtcattacagttaaaccatcttgatagttgctactatgcag-------

upper sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA18G08180.1 (Glycine max), 5'ss of exon 8
GGCAATTGATCTAATTGTTCAACATATTCGGACTAAACTTGGACAGCATGATCTTTGCAAAATACACCCCAATTTGTATGTAATTCAGACTACTTATCAGgtacct---aatgta-aaacattcatttttatttttctgaaaattt---gtttgctgtttgattgtaaacggagaactgtagaggca-ttgatgc-atagaggcatcat
 || |||||| | ||||| || |||||||| || || ||||| |||||||| || || |||||| | || ||||||||||| |||||| | |||| |||||||||    ||| ||   || ||     |||| |  |||| || |      ||    |||  |  |||| |   | |  |   |  | ||| | | ||  ||       
-GCCATTGATTTGATTGTACAGCATATTCGCACAAAGCTTGGTCAGCATGACCTGTGTAAAATATATCCTAATTTGTATGTCATTCAGTCAACTTTTCAGGtaccctgcaatttatggaccttttcaattatctcactgagaactccaaacttttgattttgtcataaaagttaagccatcttgataattgctactatgcaga------

upper sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 5'ss of exon 8
GGCAATTGATCTAATTGTTCAACATATTCGGACTAAACTTGGACAGCATGATCTTTGCAAAATACACCCCAATTTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaaaac-attcatttttattttt--ctgaaaatttgtttgct-----------gtttgattgtaaacggagaactgtagaggcattg---atgcatagaggcatcat----------------------------------------------------------------------------------
 || |||||| | ||||| ||||||||||| || ||||||||||| ||||||||||| |||||| | || ||| | ||||| |||||  | |||| |||||||  | |  |    | |||   | ||||| ||  |||    | ||| |||            || || || ||||     || |  |  | |||||   ||| |  |   ||| ||                                                                                  
AGCCATTGATTTGATTGTGCAACATATTCGTACAAAACTTGGACAACATGATCTTTGTAAAATATATCCTAATCTTTATGTCATTCAATCAACTTTTCAGgtatatcagctcttcctatttgctattattatttactgtgggtgtgtgtgcctgtgtgtgtgcgtgtgtttttaaattccaaatttcat-gtcattgtaaatgtaaggtcacatgatcttgtggattcgatattcagttttatttgcctattgaagttccaaatttcatatgattgaagctttatttgatttgatccag

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|148943393|gb|EC888452.2|EC888452
EST:     GCAAAATACACCCCAATTTGTATGTAA-TCAGACTACTTATCAG                         ATACGAGGCATGCACACAAT-ATAAGGGATGCTGCCACAGCAACACATGAT
genomic: GCAAAATACACCCCAATTTGTATGTAATTCAGACTACTTATCAGgtacctaatg ... tttgtttcagATACGAGGCATGCACACAATAATAAGGGATGCTGCCACAGCAACACATGAT