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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCATCGACGCCATCAAGTCCGCCGTCGACAAGGCCTGCCCCGGGGTCGTCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACCgtaagctctagctagtagcgaacacggcttcaatctctcacacgtactacacacatctaaatactaccacacgcaaacacttgcag

Basic information

species Zea mays
transcript GRMZM2G171078_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171078_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g02130.1 (Oryza sativa), 5'ss of exon 2
GGTCATCGACGCCATCAAGTCCGCCGTCGACAAGGCCTGCCCCGGGGTCGTCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACCgtaagctctagctagtagcgaacacggcttcaatctctcacacgtactacacacatctaaatactaccacacgcaaacacttgcag
||| ||||||||||||||||| || || || |    ||||||||| |||||||||||||||||||||||||||||||| |||||||||||||| | || |||| | || | ||| |        ||   || || |  ||   | |  ||  | |   |||    |    ||  |   |  |||||
GGTGATCGACGCCATCAAGTCGGCGGTGGAGACCATCTGCCCCGGCGTCGTCTCCTGCGCCGACATCCTCGCCATCGCTGCCAGGGACAGCGTCGCCATCgtacg-tccacctactt-------cgatctctatgttgcaactgaa--actgaaactgaaa----atggtacatatgtatatgcag

upper sequence: GRMZM2G171078_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os12g02080.1 (Oryza sativa), 5'ss of exon 2
GGTCATCGACGCCATCAAGTCCGCCGTCGACAAGGCCTGCCCCGGGGTCGTCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACCgtaagctctagctagtagcgaacacggcttcaatctctcacacgtactacacacatctaaatactaccacacgcaaacacttgcag
||| ||||||||||||||||| || || || |    ||||||||| |||||||||||||||||||||||||||||||| |||||||||||||| | || ||||               || || |  |||| |||  ||   |    || ||  |     | |||   |   | | | |  |||||
GGTGATCGACGCCATCAAGTCGGCGGTGGAGACCATCTGCCCCGGCGTCGTCTCCTGCGCCGACATCCTCGCCATCGCTGCCAGGGACAGCGTCGCCATCgta---------------cgtactccacttcgatcgatcgatctctatatactgaaactgaaactgaaaatggtacatatatgcag
















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|148996016|gb|EE035268.2|EE035268
EST:     TCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACC                         CTCGGAGGTCCGAACTGGGACGTCAAGCTTGGCCGGAGGGACTCCAGGACG
genomic: TCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACCgtaagctcta ... acacttgcagCTCGGAGGTCCGAACTGGGACGTCAAGCTTGGCCGGAGGGACTCCAGGACG
EST: gi|148940420|gb|EC885215.2|EC885215
EST:     TCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACC                         CTCGGAGGTCCGAACTGGGACGTCAAGCTTGGCCGGAGGGACTCCAGGACG
genomic: TCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACCgtaagctcta ... acacttgcagCTCGGAGGTCCGAACTGGGACGTCAAGCTTGGCCGGAGGGACTCCAGGACG
EST: gi|18659508|gb|BM500375.1|BM500375
EST:     TCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACC                         CTCGGAGGTCCGAACTGGGACGTCAAGCTTGGCCGGAGGGACTCCAGGACG
genomic: TCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACCgtaagctcta ... acacttgcagCTCGGAGGTCCGAACTGGGACGTCAAGCTTGGCCGGAGGGACTCCAGGACG
EST: gi|148941023|gb|EC885877.2|EC885877
EST:     TCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACC                         CTCGGAGGTCCGAACTGGGACGTCAAGCTTGGCCGGAGGGACTCCAGGACG
genomic: TCTCCTGCGCCGACATCCTCGCCATCGCCGCCAGGGACAGCGTTGTCACCgtaagctcta ... acacttgcagCTCGGAGGTCCGAACTGGGACGTCAAGCTTGGCCGGAGGGACTCCAGGACG