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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtttcctctgggagtttcggttaaattcggttgtggtgaggacatgatgggatcgtctgtttgtttggttcctgtgtctgtgcagcagTGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG

Basic information

species Zea mays
transcript GRMZM2G064023_T04
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064023_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g10070.2 (Oryza sativa), 3'ss of exon 1
--------------gtagtttcctctgggagtttcggttaaattcggttgtggtgaggacatgatgggatcgtctgtttgtttggttcctgtgtctgtgcagcagTGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG
               |  |||  |   ||  ||| |||| | || ||      | | |   ||| |  ||||| |  ||  ||| ||     || || |||||||      |||  || |||||| | ||||||||||||||||||||| ||||||| |||||||| |||||||| ||||||||| ||
cgtggtggtgtttaattatttttttgcgggattttggttgattttgggatgtattatgttctgacgaaatcgtttacttcgttgttt-----gtttgcgcagcagCT----TGCCCTG-TAGCCGCGTGCTCCGGCCATGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG

upper sequence: GRMZM2G064023_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 3'ss of exon 1
-----------------gtagtttcctctgggagtttcggttaaattcggttgtggtgaggacatgatgggatcgtctgtttgtttggttcctgtgtctgtgcagcagTGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG
                  |  |||  |   ||  ||| |||| | || ||      | | |   ||| |  ||||| |  ||  ||| ||     || || |||||||      |||  || |||||| | ||||||||||||||||||||| ||||||| |||||||| |||||||| ||||||||| ||
gcgcgtggtggtgtttaattatttttttgcgggattttggttgattttgggatgtattatgttctgacgaaatcgtttacttcgttgttt-----gtttgcgcagCAGCT----TGCCCTG-TAGCCGCGTGCTCCGGCCATGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG

upper sequence: GRMZM2G064023_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g33240.2 (Oryza sativa), 3'ss of exon 1
gtagtttcctctgggagtttcggttaaattcgg-ttgtggtgaggacatgatgggatcgtctgtttgtttggt--------tcctgtgtctgtgcagcagTGCAGGTGCGGTGGTAGCCGAGCGCTC-----CGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG
||     |  |   ||  |    ||||  | |  || |  |     |    ||| || |    |  |||   |        |    | |||| |     || ||  |    || |||     | |       |||| |||||||||||||||||||| |||||||| |||||| | ||||||||||||
gtgagcgcgccctcgaactcgccttaaccttgtcttatcctccactcgatctggaatggaagctaggttcaatctggggagtataatatctgggggttggttcaattcaactgttaggtccacccctgcagGCGGCGATGGCGTTCTTCCGGGGCCTGACCGCGGTTTCGAGGATTCGATCCCGCATG

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|211353688|gb|FL413271.1|FL413271
EST:     TTCGCTGCGTGGCGGGGCGGAGCCGATTAGTAACTATCCATTTGCTTCCC                         TGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCC
genomic: TTCGCTGCGTGGCGGGGCGGAGCCGATTAGTAACTATCCATTTGCTTCCCgtagtttcct ... tgtgcagcagTGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgaggacatgatgggatcgtctgtttgtttggttcctgtgtctgtgcagcagTGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG
                          tttgttt  TA-rich tract