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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcagtatatgaattgagatcaaatgtgaattgttagatttttcagtgtcgtcacatgtttgcttgggactgaaaaggtttgttattttatgcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGCTACATTTGCGCCACTGCTGAGCGTTTCTTTGCCGTAGGCAGTGTTTTAG

Basic information

species Zea mays
transcript GRMZM2G045331_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G045331_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g52340.1 (Oryza sativa), 3'ss of exon 8
-----tcagtatatgaattgagatcaaatgtgaattgttagatttttcagtgtcgtcacatgtttgcttgggactgaaaaggtttgttattttatgcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGCTACATTTGCGCCACTGCTGAGCGTTTCTTTGCCGTAGGCAGTGTTTTAG
     |||   |   ||| |||  || |  | |||   |   ||    ||    | |  |||     ||   | |  |  | |||    |   ||   | || ||||||| || ||||| || || |||||||| || |||||||||||  ||||||||||||| ||||||||||||||||||||||| ||||||||||||||||
agagctcaaagttcaaat-gaggccagaaataaatc--tcatttgccaagctaggcctaatgaaccattattatttcactgattta--gtcaaatatttttgtagGTGGCCACCTTCATTGTTCAGAAGATTCTCCTCGATGATGTTGGATTGCGCTACATTTGTGCCACTGCTGAGCGTTTCTTTGCTGTAGGCAGTGTTTTAG

upper sequence: GRMZM2G045331_T01 (Zea mays), 3'ss of exon 7
lower sequence: EFJ05830 (Selaginella moellendorffii), 3'ss of exon 6
tcagtatatgaattgagatcaaatgtgaattgttagatttttcagt-gtcgtcacatgtttgcttgggactgaaaaggtttgttattttatgcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGCTACATTTGCGCCACTGCTGAGCGTTTCTTTGCCGTAGGCAGTGTTTTAG
                          |   | |    ||||| |   ||  || | || |      | |||||||     ||||  |   | ||  ||||||| || |||||||||||||| |||||||| || |||||||| |||||    |||||||| || || || ||| | ||||| |||||  |    ||| |||
--------------------------gttctctctcttttttaaaaagttttctcctgctactccagcactgaaa-----tgttgctccgt-cac-tgcagGTCGCGACTTTCATCGTCCAGAAGATTCTGCTGGATGATGTAGGGCTCGCATACATTTGTGCAACGGCCGAGAGATTCTTCGCCGTGAGTGCAGTTCTAG

upper sequence: GRMZM2G045331_T01 (Zea mays), 3'ss of exon 7
lower sequence: EFJ23499 (Selaginella moellendorffii), 3'ss of exon 6
tcagtatatgaattgagatcaaatgtgaattgttagatttttcagtgtcgtcacatgtttgcttgggactgaaaaggtttgttattttatgcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGCTACATTTGCGCCACTGCTGAGCGTTTCTTTGCCGTAGGCAGTGTTTTAG
                        ||    | |    |||   |  ||  || | || |      | |||||||     ||||  |   | ||  ||||||| || |||||||||||||| |||||||| || |||||||| |||||    |||||||| || || || ||| | ||||| |||||  |    |||||||
------------------------gttctctctcttttttaaaaaagttttctcctgctactccagcactgaaa-----tgttgctccgt-cac-tgcagGTCGCGACTTTCATCGTCCAGAAGATTCTGCTGGATGATGTAGGGCTCGCATACATTTGTGCAACGGCCGAGAGATTCTTCGCCGTGAGTGCAGTTTTAG

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|32868505|gb|CF008187.1|CF008187
EST:     TCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACT                         GTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGC
genomic: TCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACTgtatgtagct ... gcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGC
EST: gi|211200410|gb|FL096663.1|FL096663
EST:     TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACT                         GTGGCAACTTTCATCGTCCAAAAGATTCTTCTARATGATGTTGGGCTGCGC
genomic: TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACTgtatgtagct ... gcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGC
EST: gi|78091209|gb|DV519583.1|DV519583
EST:     TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACT                         GTGGCAACTTTCATCGTCCCAAAGATTCTTCTAGATGATGTTGGGCTGCGC
genomic: TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACTgtatgtagct ... gcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGC
EST: gi|71445883|gb|DR826933.1|DR826933
EST:     TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACT                         GTGGCAACTTTCATCGTCCAAAAGAT-CTTCTAGATGATGTTGGGCTGCGC
genomic: TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACTgtatgtagct ... gcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGC
EST: gi|31356490|gb|CD440847.1|CD440847
EST:     TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACT                         GTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGC
genomic: TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACTgtatgtagct ... gcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGC
EST: gi|76936740|gb|DV174858.1|DV174858
EST:     TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACT                         GTGGCAACTTTCA
genomic: TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACTgtatgtagct ... gcatatgcagGTGGCAACTTTCA
EST: gi|31354815|gb|CD439172.1|CD439172
EST:     TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACT                         GTGGCAACTTTCATCCTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCCC
genomic: TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACTgtatgtagct ... gcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGC
EST: gi|74233595|gb|DT641509.1|DT641509
EST:     TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACT                         GTGGCAACTTTCATCGTCCNAAAGATTCTTCTAGATGATGTTGGGCTGCGC
genomic: TTCCTCTGTGCTTGCGAACCATGGAGATGGGTAGTGAGCTATCCAAAACTgtatgtagct ... gcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcgtcacatgtttgcttgggactgaaaaggtttgttattttatgcatatgcagGTGGCAACTTTCATCGTCCAAAAGATTCTTCTAGATGATGTTGGGCTGCGCTACATTTGCGCCACTGCTGAGCGTTTCTTTGCCGTAGGCAGTGTTTTAG
                                    ttattttatgcatat  TA-rich tract