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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttttctttctttccttcaccttaatttccaagttacattttggccatcctatctctcctgtgccactgattgcaatctattctgatgttctgtttcttccagTTGGACATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAATGTGATCCCCTTAAAGCTTGGCTATGTTGGTGTCGTCAACCGCAGCCAGC

Basic information

species Zea mays
transcript GRMZM2G129155_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G129155_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g69130.1 (Oryza sativa), 3'ss of exon 3
gttttttctttctttccttcaccttaatttccaagttacattttggccatcctatctctcctgtgccactgattgcaatctattctgatgttctgtt-tcttccagTTGGACATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAATGTGATCCCCTTAAAGCTTGGCTATGTTGGTGTCGTCAACCGCAGCCAGC
    |||    ||   ||| |  ||  | ||    ||| ||      |||  | |   | |   |  ||  | |   ||||   ||    |||| || |||||||| |||||||||||||||||||||| ||||| || ||||||||| ||||||||||||| || |||   || |||||||||||||| || |||||||| || |
---gtttgaccctggtcttgagttttttgtctggattaaat---aagcattgtgttcatacca-gtgacccagtttgatcttggcttcacttctattatcttccagCTGGACATAATGGACAGGGGCACAGATGCTCGTAACTTTCTGTTGGGAAATGTGATTCCATTACGACTAGGCTATGTTGGTGTGGTAAACCGCAGTCAAC

upper sequence: GRMZM2G129155_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G32940.1 (Glycine max), 3'ss of exon 3
gttttttctttctttccttcaccttaatttccaagttacattttggccatcctatctctcctgtgccactgattgcaatctattctgatgttctgtttct--tccagTTGGACATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAATGTGATCCCCTTAAAGCTTGGCTATGTTGGTGTCGTCAACCGCAGCCAGC
||    | |    |||   ||  |||| |  ||  |     ||||   ||  | |    |   |||||     ||  ||   |    || |  | |||    |  ||||||| ||||||||||| || ||||||||||||||  |  | || ||||| || || ||  |    ||||| ||||| ||||| || || ||||| ||| 
gtgcggtatactcttctagcattttaactgacacata----tttgtgaattttgttaagctgttgccatgttctgacattgttaggcatttgttatttggaatgtagTTGGATATAATGGACAGAGGTACTGATGCCCGGAATCTGTTACTAGGAAAAGTTATTCCTCTCCGACTTGGTTATGTAGGTGTTGTAAATCGCAGTCAGG
















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|149075510|gb|EE164038.2|EE164038
EST:     GTTCTCGAACAATTGGTGTTATCACAAAG                         TTGGACATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAAT
genomic: GTTCTCGAACAATTGGTGTTATCACAAAGgttttttctt ... tttcttccagTTGGACATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAAT
EST: gi|91874421|gb|EB404378.1|EB404378
EST:     GTTCTCGAACAATTGGTGTTATCACAAAG                         TTGGACATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAAT
genomic: GTTCTCGAACAATTGGTGTTATCACAAAGgttttttctt ... tttcttccagTTGGACATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctatctctcctgtgccactgattgcaatctattctgatgttctgtttcttccagTTGGACATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAATGTGATCCCCTTAAAGCTTGGCTATGTTGGTGTCGTCAACCGCAGCCAGC
                                ttctgat  putative branch site (score: 3)
                                      tgttctgtttcttcc  CT-rich tract
                          aatctatt  TA-rich tract