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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaagtgctgcagatgttctattgtgaactacaatctatgaactttataaagcatcgaaaaccaagtcaatttttttagtttctaatttctgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAACCTTTCTATCAAGTGTTCTGCTTATTGTTCTATTCTTCCATCTGTCACTA

Basic information

species Zea mays
transcript GRMZM2G460078_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G460078_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g55590.1 (Oryza sativa), 3'ss of exon 3
gcaagtgc--tgcagatgttctattgtg-aactaca-atctatgaactttataaagcatcgaaaaccaagtcaatttttttagtttctaatttctgctactt--agGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAACCTTTCTATCAAGTGTTCTGCTTATTGTTCTATTCTTCCATCTGTCACTA
 ||| | |   |   |  || | ||||  ||   || |  | || | ||||  |   ||    ||  | |||     |||||  |||||| | |||  || |  |||| |||||  || |||||||||||||||||||||| || |||||||||||  | |||| ||| ||||||||| | |||||| ||||||||||||| || |
-caaatacaaagtcaacatttttttgtacaagggcatacatttgcaatttactataaattttgaaatatgtc---cctttta--ttctaactgctgaaacctatagGACATTTCGCTGATTTTAAGCACCAAGGAGCATCAAGACATCATGGAGAATATCTCTACCAAATGTTCTGCTCACTGTTCTCTTCTTCCATCTGTGACAA
















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|78111750|gb|DV530147.1|DV530147
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
EST: gi|91049611|gb|EB160029.1|EB160029
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
EST: gi|211025828|gb|FK982703.1|FK982703
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGTTTTAAGCAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCAC
EST: gi|211025826|gb|FK982701.1|FK982701
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
EST: gi|71434528|gb|DR815578.1|DR815578
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
EST: gi|71332183|gb|DR803010.1|DR803010
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
EST: gi|93012882|gb|EB638402.1|EB638402
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
EST: gi|148961982|gb|EE012780.2|EE012780
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
EST: gi|24766847|gb|CA401979.1|CA401979
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGGTGGGGGCACCAAGGAGCATCACGAAATCATGGAGAAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
EST: gi|76925597|gb|DV170498.1|DV170498
EST:     TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCA                         GATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC
genomic: TTGCCCTTAGCTATCCAGAAGCTGAGCTTCTTCATGTCATGAATGACTCAgtatgttcca ... tgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataaagcatcgaaaaccaagtcaatttttttagtttctaatttctgctacttagGATATTTCAATGGTTTTAAGCACCAAGGAGCATCACGAAATCATGGAGAACCTTTCTATCAAGTGTTCTGCTTATTGTTCTATTCTTCCATCTGTCACTA
                                   ttctaat  putative branch site (score: 2)
                                         tttctgct  CT-rich tract
                     tcaatttttttagttt  TA-rich tract