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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatgataaaaaaaactccacacttcttttctttcctggctgatcgatacccctggttagcactataaaacaaaatggtactacttgagtttgggtatcacgttttgtgcgtgcttcgttcttttcttgtgcagATACCAAGGAAAGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAAAACTGGGATGGGCCTACAGCCAA

Basic information

species Zea mays
transcript GRMZM2G322953_T04
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G322953_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g36270.3 (Oryza sativa), 3'ss of exon 6
gttaatgataaaaaaaactccacacttcttttctttcctggctgatcgatacccctggttagcactataaaacaaaatggtactacttgagtttgggtatcacgttttgtgcgtgcttcgttcttttcttgtgcagATACCAAGGAAAGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAAAACTGGGATGGGCCTACAGCCAA
||   ||||  || ||      || ||||| |  ||  | |  ||| | |   | ||| |        ||||||||||||   |       ||| || | |  ||  ||| |        |  | || ||||| |||||||||  | ||| |||||||||||||| ||||||||||| || ||||| |||||||  |||||||| ||
gtctgtgattcaacaa----tgcaattcttgttcttaattg--gattggt---catggat-------caaaacaaaatggccat-------ttttggcacc-tgtactgtac--------tcttctttttgtgtagATACCAAATAGAGGAAAGATCTATTCAGTGAACGAAGGGAATGCGAAAAATTGGGATGCTCCTACAGCGAA

upper sequence: GRMZM2G322953_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G28310.1 (Glycine max), 3'ss of exon 8
gttaatgataaaaaaaactccacacttcttttctttcctggctgatcgatacccctg-gttagcactataaaacaaaatggtactacttgagtttgggtatcacgttttgtgcgtgcttcgttcttttcttgtgcagATACCAAGGAAAGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAAAACTGGGATGGGCCTACAGCCAA
                       | ||| | |      | |   ||  | || | |   |   | | ||    ||    | ||||    |  | |||  ||||  |||  ||  || |||          ||||||||| |||| |||||| || || |||||||| || ||||| || ||||||||||||||| | ||||| || | 
-----------------------aattcatatagactatagagtataaacacacgtatatccacgccat----cagtgggttacttgaggtatatggtaatca--tttgatgtatgattc--------tctgtgcagATCCCAAAGAAAGGTAAAATTTATTCAGTGAATGAAGGAAATGCCAAAAACTGGGATCGTCCTACTGCTAC
















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|32861683|gb|CF001365.1|CF001365
EST:     CTCTGGATCCTTCCCTTGGAGAGTTCATTTTGACTCATCCAAATATCAAG                         ATACCAAAGAAAGGGAAGATCTATTCAGTGAACGAAGGGAACGCAAAAAAC
genomic: CTCTCGATCCTTCCCTTGGAGAGTTCATTTTGACTCATCCAAATATCAAGgttaatgata ... tcttgtgcagATACCAAGGAAAGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAAAAC
EST: gi|74034973|gb|DT535463.1|DT535463
EST:     TGACTCATCCAAATATCAAG                         ATACCAAGGAAAGGGAAGATCTATTCAGTCAACGAAGGGAACGCTAAAAAC
genomic: TGACTCATCCAAATATCAAGgttaatgata ... tcttgtgcagATACCAAGGAAAGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actacttgagtttgggtatcacgttttgtgcgtgcttcgttcttttcttgtgcagATACCAAGGAAAGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAAAACTGGGATGGGCCTACAGCCAA
                                tgcttcgttcttttct  CT-rich tract
                                       ttctttt  TA-rich tract