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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgcactcttcacgtaacataataagaatgacattttgtgatgattacaagactagtcaacagccagtttcagtacacattttcccctaaagaccttttttgctttatttgaagGTTGTCCGAGTGTGGGATCCGAGGACAGGATCGAAAAACATGAAATTGAGAGGGCACACTGACAATATCAGAGCCTTGCTTGTTGATTCTACAGGGAG

Basic information

species Zea mays
transcript GRMZM2G167999_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 6
gtattgcactcttcacgtaacataataagaatg-acattttgtgatgattacaagactagtcaaca-gccagtttcagtacacattttcccctaaagaccttttttgctttattt---------------------gaagGTTGTCCGAGTGTGGGATCCGAGGACAGGATCGAAAAACATGAAATTGAGAGGGCACACTGACAATATCAGAGCCTTGCTTGTTGATTCTACAGGGAG
|||||    ||||||  |   | ||| || ||| |  |||  |   | |||  || |     ||   || | ||||  |  ||   ||     | |||||| |  ||   |||||                     | ||||||| || || |||||||| ||||| || || || || |||||||||||||||||||||||||||||||| || || ||| ||||| |||| || ||
gtattatgttcttcatctttgagaatgagtatgcaagtttccttggggttaggaggcaccataatgtgcgaatttctttggactgcttttg--agagacctctcctgtgatatttccttatatgtacctgtttagtgtagGTTGTTCGCGTTTGGGATCCCAGGACTGGTTCAAAGAAAATGAAATTGAGAGGGCACACTGACAATATCAGGGCTTTACTTCTTGATCCTACTGGCAG
















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|71433407|gb|DR814457.1|DR814457
EST:     TGGCGATGAATGATACAGGAACCCTTCTTCTCTCTGGTGGCACTGAGAAG                         GTTGTCCGAGTGTGGGATCCGAGGACAGGATCGAAAAACATGAAATTGAGA
genomic: TGGCGATGAATGATACAGGAACCCTTCTTCTCTCTGGTGGCACTGAGAAGgtattgcact ... ttatttgaagGTTGTCCGAGTGTGGGATCCGAGGACAGGATCGAAAAACATGAAATTGAGA
EST: gi|18385199|gb|BM418398.1|BM418398
EST:     TGGCGATGAATGATACAGGAACCCTTCTTCTCTCTGGTGGCACTGAGAAG                         GTTGTCCGAGTGTGGGATCCGAGGACAGGATCGAAAAACATGAAATTGAGA
genomic: TGGCGATGAATGATACAGGAACCCTTCTTCTCTCTGGTGGCACTGAGAAGgtattgcact ... ttatttgaagGTTGTCCGAGTGTGGGATCCGAGGACAGGATCGAAAAACATGAAATTGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagccagtttcagtacacattttcccctaaagaccttttttgctttatttgaagGTTGTCCGAGTGTGGGATCCGAGGACAGGATCGAAAAACATGAAATTGAGAGGGCACACTGACAATATCAGAGCCTTGCTTGTTGATTCTACAGGGAG
                         ccctaaa  putative branch site (score: 3)
                                  ccttttttgctttatt  putative PPT
                                    ttttttgctttattt  TA-rich tract