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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccctcttatgttctgtcttcacatggtcttctgaagatttttgtgcctatcggttgttttctaactactgtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAGAGAAGGTGCTCCTTACAGTAAAGCCACAATGTGAGATTCCATTTCAAA

Basic information

species Zea mays
transcript GRMZM2G096585_T05
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G096585_T05 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g41390.2 (Oryza sativa), 3'ss of exon 4
gtaaccctcttatgttctgtcttcacatggtcttctgaagatttttgtgcctatcggttgttttctaac------tactgtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAGAGAAGGTGCTCCTTACAGTAAAGCCACAATGTGAGATTCCATTTCAAA
|| |    |  ||  |||  |||  ||   | | |||   ||| ||| ||  ||| | || || |||||       | | |  | ||||| | ||| || ||||| ||||| ||||||||||||||||||||||| |||||||| |||||||||||||| ||||||||||                  
gtgattaccc-ataatct-ccttgtcaacatttcctgttcattattgagca-atcagctgcttgctaacgaaataaagtttggttccagGTTTCTTCTGCCCTGCGCTGGCGAAAGCTGTCAAAACCATGAAAAAAGCAGAGAAAGTGCTCCTTACAGTTAAGCCACAAT------------------
















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|148938868|gb|EC883219.2|EC883219
EST:     TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATG                         GCTACTTTTGTCCTGCCCTGGCCAAAGCTG
genomic: TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATGgtaaccctct ... gtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTG
EST: gi|211429499|gb|FL195642.1|FL195642
EST:     TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATG                         GCTACTTTTGTCCTGCCCTGGCCAAAGCTG
genomic: TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATGgtaaccctct ... gtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTG
EST: gi|149111770|gb|EE190920.2|EE190920
EST:     TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATG                         GCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAG
genomic: TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATGgtaaccctct ... gtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAG
EST: gi|71767511|gb|DR965448.1|DR965448
EST:     TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATG                         GCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAA
genomic: TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATGgtaaccctct ... gtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAA
EST: gi|47962115|gb|CN844824.1|CN844824
EST:     TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATG                         GCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAG
genomic: TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATGgtaaccctct ... gtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAG
EST: gi|149081119|gb|EE170223.2|EE170223
EST:     TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATG                         GCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAG
genomic: TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATGgtaaccctct ... gtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAG
EST: gi|148958573|gb|EC904817.2|EC904817
EST:     TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATG                         GCTACTTTTGTCCTGCCCCTGGCCAA-GCTGTCAAAACCATGAAAAAGGCA
genomic: TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATGgtaaccctct ... gtattgccagGCTACTTTTGTCCTGCCC-TGGCCAAAGCTGTCAAAACCATGAAAAAGGCA
EST: gi|149009170|gb|EE041295.2|EE041295
EST:     TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATG                         GCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAG
genomic: TGGTACTGTTGTATCCAAGTCTGAGGGGGTTGAGTTTACTGTGAAAGATGgtaaccctct ... gtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtcttctgaagatttttgtgcctatcggttgttttctaactactgtattgccagGCTACTTTTGTCCTGCCCTGGCCAAAGCTGTCAAAACCATGAAAAAGGCAGAGAAGGTGCTCCTTACAGTAAAGCCACAATGTGAGATTCCATTTCAAA
                                  ttctaac  putative branch site (score: 1)
         aagattttt  TA-rich tract