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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgaatctgtgggacaattgtaaatcccattacatatatttagttccccatttgtttttgttgcaactgtgcgtaatatttggatacactctttgaagGTTGTGGACTGTCGCATGTGTGGAGACCCAAACTCAGTCCTTCGGTTCGCCTTCATAGAGTTCACTGATGAGG

Basic information

species Zea mays
transcript GRMZM2G173428_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 3
gtacgaatctgtgggacaattgtaaatcccattacatatatttagttccccatttg-tttttgttgcaactgtgcgtaata--tttgga--tacactctttgaagGTTGTGGACTGTCGCATGTGTGGAGACCCAAACTCAGTCCTTCGGTTCGCCTTCATAGAGTTCACTGATGAGG
                                ||||| | | | | ||| || ||| ||| |||   || ||||| |||||   ||| |  |   || | ||||||||||||||||||| |||||||| || || || || || ||||| || || ||||||||||||||||||||||
-------------------------------gtacatttttctggctccacacttgctttctgtgataattgtgcataataatcttgaaatttttctttctgaagGTTGTGGACTGTCGTATGTGTGGGGATCCGAATTCTGTTCTTCGTTTTGCTTTCATAGAGTTCACTGATGAGG

upper sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G32790.2 (Arabidopsis thaliana), 3'ss of exon 3
gtacgaatctgtgggacaattgtaaatcccattacatatatttagttccccatttgtttttgttgcaactgtgcgtaatatttggatacactctttgaagGTTGTGGACTGTCGCATGTGTGGAGACCCAAACTCAGTCCTTCGGTTCGCCTTCATAGAGTTCACTGATGAGG
       |       |   |  | || | | | |  |||    |  |||    ||||  ||| |     |||| ||  || | |  |    | ||   ||||||| ||||||||||| || || ||||||||||| ||||||||||| || |||||||||||||||||||| |
------gttgaaaatattttcttgaagctc-tcatctatg---aactccatcattgtgcttggt-----tgtgtgtcttact-gtgtttggttttaacagGTTGTTGACTGTCGCATATGCGGTGACCCAAACTCGGTCCTTCGGTTTGCATTCATAGAGTTCACTGATGAAG
















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|78116430|gb|DV534817.1|DV534817
EST:     GTTACTGAAGAAAACCTGGCAGCACTATTTATAAATTGTGGACAG                         GTTGTGGACTGTCGCATGTGTGGAGACCCAAACTCAGTCCTTCGGTTCGCC
genomic: GTTACTGAAGAAAACCTGGCAGCACTATTTATAAATTGTGGACAGgtacgaatct ... ctctttgaagGTTGTGGACTGTCGCATGTGTGGAGACCCAAACTCAGTCCTTCGGTTCGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccccatttgtttttgttgcaactgtgcgtaatatttggatacactctttgaagGTTGTGGACTGTCGCATGTGTGGAGACCCAAACTCAGTCCTTCGGTTCGCCTTCATAGAGTTCACTGATGAGG
                                           cactcttt  CT-rich tract
      atttgttttt  TA-rich tract