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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttccgatgctagcatgtatgtatgtatgatatgttaatgccagtgcacaattttcctcgactcattcataatccccagcgcactgtttcatgttctcagAGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAGCCGCTAAAGGGCTCGCTTGCCTCCACAACGCTCAAAGGCCCGTCATCTA

Basic information

species Zea mays
transcript GRMZM2G099754_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G099754_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g02810.1 (Oryza sativa), 3'ss of exon 3
-tttccgatgctagcatgtatgtatgtatgatatgttaatgccagtgcacaattttcctcgactcattcataatccccagcgcactgtttcatgttctcagAGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAGCCGCTAAAGGGCTCGCTTGCCTCCACAACGCTCAAAGGCCCGTCATCTA
 | | |    |||   | | |   ||||   | || | |  |  ||   |||  ||     | |   | | | |  |        |  ||  | ||||||| ||||||||| ||| |  |||||| |||||||||||| || ||  | || || || |||||| | |||||||||||||| ||| |||||||  | |||||
ttgtgctcaactatattttgttcttgtacattgtggtga-acttgtattcaagattaggaaattttctgacattgtctgtgcttttcctttttcttctcagGGACAGCTACTCCACTATCCTGGGCTACTAGGATGTCGATTGCATTAGGGGCTGCCAAAGGGTTAGCTTGCCTCCACAATGCTGAAAGGCCAATTATCTA

upper sequence: GRMZM2G099754_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g02830.2 (Oryza sativa), 3'ss of exon 3
--tttccgatgctagcatgtatgtatgtatgatatgttaatgccagtgcacaattttcctcgactcattcataatccccagcgcactgtttcatgttctcagAGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAGCCGCTAAAGGGCTCGCTTGCCTCCACAACGCTCAAAGGCCCGTCATCTA
  |   | |   ||   | | | | ||||   | || | |     ||   | |   |     | |   | | | |  |        |  ||  | ||||||| ||||||||| ||| |  | |||| |||||||||||| || ||  | ||||| || |||||| | |||||||||||||| ||| |||||||  | |||||
tatgctcaactatattttttttct-tgtacattgtggtgaaatt-gtattcgagagtaggaaatttcctgacattgtctgtgcttttcatttttcttctcagGGACAGCTACTCCACTATCGTGGGCTACTAGGATGTCGATTGCATTAGGAGCTGCCAAAGGGTTAGCTTGCCTCCACAATGCTGAAAGGCCAATTATCTA
















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|78089253|gb|DV517627.1|DV517627
EST:     TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAA                         AGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAG
genomic: TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAAgtaaaccttc ... atgttctcagAGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAG
EST: gi|32833257|gb|CD972935.1|CD972935
EST:     TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAA                         AGACAGCTACGCCATTGCCCTGGGGT
genomic: TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAAgtaaaccttc ... atgttctcagAGACAGCTACGCCATTGCCCTGGGGT
EST: gi|6564164|gb|AW231786.1|AW231786
EST:     TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAA                         AGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAG
genomic: TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAAgtaaaccttc ... atgttctcagAGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAG
EST: gi|67032695|gb|CO461444.1|CO461444
EST:     TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAA                         AGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAG
genomic: TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAAgtaaaccttc ... atgttctcagAGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAG
EST: gi|6637068|gb|AW261340.1|AW261340
EST:     TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAA                         AGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAG
genomic: TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAAgtaaaccttc ... atgttctcagAGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAG
EST: gi|148962074|gb|EE012878.2|EE012878
EST:     TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAA                         AGACAGCTACGCCATTGCCCTGNGGTACTAGGATGTCAATCGCGCTGGGAG
genomic: TGTCTACGAGTTCATGTTTCGAGGAAGTCTAGAAAACCACTTATTCCGAAgtaaaccttc ... atgttctcagAGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcacaattttcctcgactcattcataatccccagcgcactgtttcatgttctcagAGACAGCTACGCCATTGCCCTGGGGTACTAGGATGTCAATCGCGCTGGGAGCCGCTAAAGGGCTCGCTTGCCTCCACAACGCTCAAAGGCCCGTCATCTA
                                              tgttctc  CT-rich tract
                   attcataat  TA-rich tract