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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCCAGAGgtgcccctccgccatcgtcgcccttcctatcccctttcctcagcaggcaatccctgctgtgcggggtctcttagattcctttctccgtggctccgtgctt...

Basic information

species Zea mays
transcript GRMZM2G116840_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g47770.1 (Oryza sativa), 5'ss of exon 2
TGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCCAGAGgtgcccctccgccatcgtcgcccttcctatcccctttcctcagcaggcaatccctgctg-tgcggggtctcttagattcctttctccgtggctccgtgctt-
||||||||||||| |||| ||| ||||||||||||||||||||||||||||||||||| ||| | ||||||||||||| |||||||||| | ||||||||||| ||| || ||  |  |||     ||  ||     |    |       ||| ||| | |   | || || |   || |  | ||  |      |   |  
TGAGCAAGATCGCGTGCAACCGGCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCTCCCTCCGGCTTCAAGCACAAGGTCACCGACAATCTCCAGAGgtgaccccccccctcccccgcgaccact--ccaaacccacgcggtttttgtccttgccgctttcgcgtttcgtctctttccctttcgattcagatgaaatcg

upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA11G07810.1 (Glycine max), 5'ss of exon 2
TGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCCAGAGgtgcccctccgccatcgtcgcccttcctatcccctttcctcagcaggcaatccctgctgtgcggggtctcttagattcctttctccgtggctccgtgctt
|||| ||||| |||||||   | || ||||| ||||||| ||||||||||||||| || ||| | || ||||||||||  ||||| ||| | |||||||||| ||         ||    | |  ||||     | ||     |   |   |  |  |        |  ||| | ||  ||||||  |||          
TGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGGCAGGTCAATCCCCCCACTGGTTTCAAGCACAAAGTCACAGACAATCTCCAGAGgtaccagattcttctcaatccacaccctaaatattatcgatttcgttcttccattattcctttacattcctttgctttgtttctctctggaag-------

upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G37480.1 (Glycine max), 5'ss of exon 2
TGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCCAGAGgtgcccctccgccatcgtcgcccttcctatcccctttcctcag---caggcaatccctgctgtgcggggtctcttagattcctttct---ccgtggctccgtgctt---------
|||| ||||| |||||||   | || ||||| ||||||| ||||||||||||||| || ||  | || ||||||||||  ||||||||| | |||||||||| ||         |  |  ||||  | |||  |   |   |    |  |   ||| |  |     |   |  ||| |||  ||| |   || | |||  ||   |         
TGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGGCAGGTCAATCCCCCAACTGGTTTCAAGCACAAAGTCACCGACAATCTCCAGAGgtaccagattcttctaattcccctctcaatcaacaccctaaatattctcgatttccttcttccattgttccctttacattgttttttgttcctttgctttgtttctctctggaag

upper sequence: GRMZM2G116840_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv18s0001g13180.t01 (Vitis vinifera), 5'ss of exon 2
TGAGCAAGATCGCCTGCAGCCGCCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCCAGAGgtgcccctccgccatcgtcgcccttcctatcccctttcctcagcaggcaatccctgctgtgcggggtctcttagattcctttctccgtggctccgtgctt
| ||||||||||||||||  ||||| ||||| ||||| | ||| |||||||||||||| || ||||| |||||||| |  ||||| ||  | || |||||||  |  |      |  |     ||  |||     ||  |          |   |  | |           | | ||   ||    |             
TAAGCAAGATCGCCTGCAATCGCCTCCAGAAAGAGCTGGTGGAATGGCAGGTCAACCCTCCTGCGGGATTCAAGCATAAAGTCACAGATAATCTACAGAGgtttcgttttcgattgattttgttttttattttgatttgttttttatt--tttttattttttaaaaatggattgttttgatttaaag-------------

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|211372658|gb|FL212545.1|FL212545
EST:     GTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCCAGAG                         GTGGGTCATCGATGTAGCGGGGGCAGCAGGCACGCTCTACACTGGCGAAAC
genomic: GTCAACCCGCCCGCGGGCTTCAAGCACAGGGTCACCGACGACCTCCAGAGgtgcccctcc ... acaaaaaaagGTGGGTCATCGATGTAGCGGGGGCAGCAGGCACGCTCTACACTGGCGAAAC