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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgtgtgccgccacgcttatagtcgaagcaagggagaggattggtaatgttcatgcactcttgaatgaaactagtttctgttctgttctgtagGCATCGCTGCGTTTTATAAGGACTGTGTCGAGGCGCTCTATGAAAACCTCGGTGGCCAAGCATCTATTACAG

Basic information

species Zea mays
transcript GRMZM2G133959_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133959_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g72870.1 (Oryza sativa), 3'ss of exon 4
gtccgtgtgccgccacgcttatagtcgaagcaagggagaggattggtaatgttcatgcactcttgaatgaaactagt------ttctgtt-ctgttctgtagGCATCGCTGCGTTTTATAAGGACTGTGTCGAGGCGCTCTATGAAAACCTCGGTGGCCAAGCATCTATTACAG
    || |   | ||| || |   |||  |  |      |  |||  | || ||||| |    | | |||    | |      | ||||| |||||  | ||| |||| ||| || || ||||||| ||| || | ||||||||| ||||||||||| ||||||||||||||||
----gt-tagtggcacactgaagatcggtgagaattgatgtgttg-cattgctcatgaaagagt-attgaggtcattggagaatcctgttgctgtttggcagGTATCGTTGCATTCTACAAGGACTTTGTTGAAGAGCTCTATGAGAACCTCGGTGGGCAAGCATCTATTACAG
















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|71445213|gb|DR826263.1|DR826263
EST:     AAGGTCCAAAGAGCCGTCCCTCCACGTGCTGCTTATTGCTGGGAACCCAG                         GCATCGCTGCGTTTTATAAGGACTGTGTCGAGGCGCTCTATGAAAACCTCG
genomic: AAGGTCCAAAGAGCCGTCCCTCCACGTGCTGCTTATTGCTGGGAACCCAGgtccgtgtgc ... tgttctgtagGCATCGCTGCGTTTTATAAGGACTGTGTCGAGGCGCTCTATGAAAACCTCG
EST: gi|148930291|gb|EC872790.2|EC872790
EST:     AAGGTCCAAAGAGCCGTCCCTCCACGTGCTGCTTATTGCTGGGAACCCAG                         GCATCGCTGCGTTTTATAAGGACTGTGTCGAGGCGCTCTATGAAAACCTCG
genomic: AAGGTCCAAAGAGCCGTCCCTCCACGTGCTGCTTATTGCTGGGAACCCAGgtccgtgtgc ... tgttctgtagGCATCGCTGCGTTTTATAAGGACTGTGTCGAGGCGCTCTATGAAAACCTCG
EST: gi|148931157|gb|EC873861.2|EC873861
EST:     AAGGTCCAAAGAGCCGTCCCTCCACGTGCTGCTTATTGCTGGGAACCCAG                         GCATCGCTGCGTTTTATAAGGACTGTGTCGAGGCGCTCTATGAAAACCTCG
genomic: AAGGTCCAAAGAGCCGTCCCTCCACGTGCTGCTTATTGCTGGGAACCCAGgtccgtgtgc ... tgttctgtagGCATCGCTGCGTTTTATAAGGACTGTGTCGAGGCGCTCTATGAAAACCTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattggtaatgttcatgcactcttgaatgaaactagtttctgttctgttctgtagGCATCGCTGCGTTTTATAAGGACTGTGTCGAGGCGCTCTATGAAAACCTCGGTGGCCAAGCATCTATTACAG
                                    tttctgttctgttct  CT-rich tract
      taatgtt  TA-rich tract