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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggccattagtatcgtggtcagttttagttgttctctttgtgtcgactttgagattcgctattctatactgttgctcattaacaattttgaccacagCAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGGGTCTTAACTCACTACAATAGGCCAATATTCAAAGTTGAGCGCCAACATACTG

Basic information

species Zea mays
transcript GRMZM2G107101_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g08700.1 (Oryza sativa), 3'ss of exon 6
--------------------------------------------------------gtgaggccattagtatcgtggtcagttttagttgttctctttgtgtcgactttgagattcgctattcta-tactgttgctcattaa----caattttgaccacagCAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGGGTCTTAACTCACTACAATAGGCCAATATTCAAAGTTGAGCGCCAACATACTG
                                                        |  | |   ||      |  ||   ||| | |  || | | |     |   |    ||    |||   | |||| |||||||| ||    ||| ||| |   ||| |||||||||| ||||||||||||||||||||||||||||||||||| ||  ||||||||||||| |||||||| ||||||||||| | |||||||| ||
gtaaggcccctactctaatggttagttccaatttattggttcatttctctgtgtttgataagattttgcctctgctgtgcatttcaat-attatatctaaactgtgctgcttatagcttatcaaactactcttgctcataaagatgcaacttttat-gcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTTCTAACTCACTACAACAGGCCAATCTTCAAAGTTGATCACCAACATAGTG
















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|89106449|gb|DY576666.1|DY576666
EST:     CCCATTCAGTTCCTTCATCTCTTTATTCAGCCATAATTCTGAG                         CAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGGGTC
genomic: CCCATTCAGTTCCTTCATCTCTTTATTCAGCCATAATTCTGAGgtgaggccat ... ttgaccacagCAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGGGTC
EST: gi|149079265|gb|EE168237.2|EE168237
EST:     ATGGTCCCCCATTCAGTTCCTTCATCTCTTTATTCAGCCATAATTCTGAG                         N
genomic: ATGGTCCCCCATTCAGTTCCTTCATCTCTTTATTCAGCCATAATTCTGAGgtgaggccat ... ttgaccacag-
EST: gi|149079265|gb|EE168237.2|EE168237
EST:     ATGGTCCCCCATTCAGTTCCTTCATCTCTTTATTCAGCCATAATTCTGAG                         N
genomic: ATGGTCCCCCATTCAGTTCCTTCATCTCTTTATTCAGCCATAATTCTGAGgtgaggccat ... ttgaccacag-
EST: gi|18963998|gb|BM660749.1|BM660749
EST:     AGCCATAATTCTGAG                         CAAGAGTACTCAGAGCAG-GGGCCTTGGCCTGTGGAGAAATTCTTAGGGTC
genomic: AGCCATAATTCTGAGgtgaggccat ... ttgaccacagCAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgactttgagattcgctattctatactgttgctcattaacaattttgaccacagCAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGGGTCTTAACTCACTACAATAGGCCAATATTCAAAGTTGAGCGCCAACATACTG
                                 tcattaacaatttt  TA-rich tract