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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctttcacatgcttcagcattttctttgtttctggtttatagttatgagcctgtgacacaaaactactgttgcagTTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAGATTTCTGCAATCTGTCAAAACTAGCTTGTCAACCTTGTTGCGTGGGCGT

Basic information

species Zea mays
transcript GRMZM2G451672_T03
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G451672_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os07g33670.1 (Oryza sativa), 3'ss of exon 15
---------------gtatctttcacatgcttcagcat---tttctttgtttctggtttatagttatgagcctgtgacacaaaa-ctactgttgcagTTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAGATTTCTGCAATCTGTCAAAACTAGCTTGTCAACCTTGTTGCGTGGGCGT
                | ||||| ||     | ||| |   | | |||  || |  | | ||||| |||   |||||  |||||  ||||   |||| |||||||||||||| ||||| ||||| ||||| || |||||||||||||| ||||| || | ||| ||||||||||||||| || |||||| |||  ||
gtattttttatcacgatttcttttactgaaataagcgtcagtgtgtttacttttt-tctctagttttgattatgtgatgcaaaaattactaccgcagCTGGCAGAATGATGTGTTTGTAGTTGCGGAACCAGGGGAACTTGCAGACAGGTTTCTCCAGTGTGTGAAAACTAGCTTGTCAGCCATGTTGCATGGATGT

upper sequence: GRMZM2G451672_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA07G38890.1 (Glycine max), 3'ss of exon 14
gtatctttcaca-tgcttcagcattttct--ttgtttctggtttatagttatgagcctgtgacacaaaac----tactgttgc----------agTTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAGATTTCTGCAATCTGTCAAAACTAGCTTGTCAACCTTGTTGCGTGGGCGT
|||| |   ||| || ||||  |  | ||  |  || |   |   || || ||  | ||||     || |    | || |||           |||||||| |||||||||||||| || |||||||| |||||||| || || | ||||||||||  ||| |||   || ||||   |     || |  | | |
gtatttgctacaatgtttcatgaactcctattcattgccaatagttatttttgtccgtgtggatggaagcctgatgctattgtccttttatttagTTGGCACAATGATGTATTTGTTGTGGCTGAACCTGGAGAACTCGCTGAGAAATTTCTGCAAAATGTTAAATTCAGTTTGTTGTCAACAATGAGGAGCCAT

upper sequence: GRMZM2G451672_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA17G01850.1 (Glycine max), 3'ss of exon 15
------------------gtatctttcacatgcttcag--cattttct----ttgtttctggtt-tatagttatgagcctg-tgacacaaaactactgttgcagTTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAGATTTCTGCAATCTGTCAAAACTAGCTTGTCAACCTTGTTGCGTGGGCGT
                   ||| |||||    || |    |||| ||     || ||| ||    | | | |   |||||| ||  |     ||  | ||  |||||||| |||||||||||||| || |||||||| ||||| || || || | |||||| |||  ||| |||   || ||||   |     || |  | | |
gtatctgctactatgctactatgtttcatgaactcctattcattgtcaatagttatttttgcccgtgtggatggaagcctgatgctattgtccttttatt-tagTTGGCACAATGATGTATTTGTTGTGGCTGAACCTGGAGAGCTCGCTGAGAAATTTCTACAAAATGTTAAATTCAGTTTGTTGTCAACAATGAGGAGCCAT

upper sequence: GRMZM2G451672_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT1G61850.2 (Arabidopsis thaliana), 3'ss of exon 15
--------gtatctttcacatgcttcagcattttctttgtttct-----ggtttatagttatgagcctgtgacacaaaactactgttgc-----agTTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAGATTTCTGCAATCTGTCAAAACTAGCTTGTCAACCTTGTTGCGTGGGCGT
          |  |||||  | |  |   ||     |   ||||     |||| ||  |  |||     | |||      |  || |       |||||||| |||||||||||||||||||||||||| ||||| || || || |  ||||| |||   ||||||   ||  | |   |  |  |||   |   |
gttagtccaaacttttcagtttccaccatatcacactcagttctaaaaaggttgattctagtgaattgattacatttgctttttggtttcatttagTTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAAGTTTCTCCAAAGCGTCAAAGTCAGTATATTGTCAGTCATGCAAAGTAAT

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|211446144|gb|FK957831.1|FK957831
EST:     GGTGTAATACACCTGGCTCTTCAAAATGATTCAACCGGTTCAGTATTGAG                         TTGGCAGAATGATGTATTTGTGGTTGCTGAACCTGGAGAACTTGCAGACAG
genomic: GGTGTAATACACCTGGCTCTTCAAAATGATTCAACCGGTTCAGTATTGAGgtatctttca ... actgttgcagTTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAG
EST: gi|88757996|gb|DY542137.1|DY542137
EST:     GGTGTAATACACCTGGCTCTTCAAAATGATTCAACCGGTTCAGTATTGAG                         TTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAG
genomic: GGTGTAATACACCTGGCTCTTCAAAATGATTCAACCGGTTCAGTATTGAGgtatctttca ... actgttgcagTTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctttgtttctggtttatagttatgagcctgtgacacaaaactactgttgcagTTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAGATTTCTGCAATCTGTCAAAACTAGCTTGTCAACCTTGTTGCGTGGGCGT
               tttatagttat  TA-rich tract