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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttccgtttagcggtgtcgctttgtccttcaccggtttagggggctgtcgtgttgatattttttttcccctctgtgctgttcgtgttgccag

Basic information

species Zea mays
transcript GRMZM2G064023_T04
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064023_T04 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 2
TGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttccgtttagcggtgtcgctttgtcct--tcaccggtttagggggctgtcgtgttgatattttttttcccctctgtgctgttcgtgttgccag
  ||| |      ||||||| | ||||||||||||||||||||| ||||||| |||||||| |||||||| ||||||||| |||||||   |||        |  |  || | | ||    |   ||||       |||    |  | | || ||     || |||| |||  |         
--CAGCTTGCCCTGTAGCCGCGTGCTCCGGCCATGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatccaacatcttgcatgcctattttctggcgatgcgtttgcatttatgtgcgctgaaaaattgttcgttgctttgtgttgtcag---------

upper sequence: GRMZM2G064023_T04 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g10070.2 (Oryza sativa), 5'ss of exon 2
TGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttccgtttagcggtgtcgctttgtcct--tcaccggtttagggggctgtcgtgttgatattttttttcccctctgtgctgttcgtgttgccag
      |||  || |||||| | ||||||||||||||||||||| ||||||| |||||||| |||||||| ||||||||| |||||||   |||        |  |  || | | ||    |   ||||       |||    |  | | || ||     || |||| |||  |         
----CTTGCCCTG-TAGCCGCGTGCTCCGGCCATGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatccaacatcttgcatgcctattttctggcgatgcgtttgcatttatgtgcgctgaaaaattgttcgttgctttgtgttgtcag---------

upper sequence: GRMZM2G064023_T04 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g33240.1 (Oryza sativa), 5'ss of exon 2
TGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttccgtttagcggtgtcgctttgtccttcaccggtttagggggctgtcgtgttgatattttttttcccctctgtgctgttcgtgttgccag
          ||   | ||  ||   | ||| |||||||||||||||||||| |||||||| |||||| | ||||||||||||||||||  |  | | | |  |      | |||| |  |   |||   | ||  | ||| ||      |      ||  | ||||  |  || ||||||
----------GTC-CACCCCTGCAGGC-GGCGATGGCGTTCTTCCGGGGCCTGACCGCGGTTTCGAGGATTCGATCCCGCATGgtgagtagt--ggtgatccatcatcgatcgtccatgtcaatttttttgtgcatttgtggtgtggcgctgaaattccgtt-tgctcgtgttgctgccag

upper sequence: GRMZM2G064023_T04 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g33240.2 (Oryza sativa), 5'ss of exon 2
TGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttccgtttagcggtgtcgctttgtccttcaccggtttagggggctgtcgtgttgatattttttttcccctctgtgctgttcgtgttgccag
                           |||| |||||||||||||||||||| |||||||| |||||| | ||||||||||||||||||  |  | | | |  |      | |||| |  |   |||   | ||  | ||| ||      |      ||  | ||||  |  || ||||||
--------------------------GCGGCGATGGCGTTCTTCCGGGGCCTGACCGCGGTTTCGAGGATTCGATCCCGCATGgtgagtagt--ggtgatccatcatcgatcgtccatgtcaatttttttgtgcatttgtggtgtggcgctgaaattccgtt-tgctcgtgttgctgccag

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|149090362|gb|EE179668.2|EE179668
EST:     TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG                         GCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttc ... gtgttgccagGCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
EST: gi|149082725|gb|EE171943.2|EE171943
EST:     TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG                         GCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttc ... gtgttgccagGCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
EST: gi|149077813|gb|EE166538.2|EE166538
EST:     TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG                         GCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttc ... gtgttgccagGCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
EST: gi|8103179|gb|AW927835.1|AW927835
EST:     TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG                         GCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttc ... gtgttgccagGCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
EST: gi|211399063|gb|FL099822.1|FL099822
EST:     TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG                         GCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttc ... gtgttgccagGCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
EST: gi|71450120|gb|DR831170.1|DR831170
EST:     TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG                         GCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttc ... gtgttgccagGCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
EST: gi|76287895|gb|DV027463.1|DV027463
EST:     TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATG                         GCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttc ... gtgttgccagGCGCAGGAGGCCACCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGC