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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacgctaccgcccctagatcgctggaattttgcgtctctagcagctcgtgcttgtacagttttctgatcgaggcggcactgatgccgtttccccttttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCGTCGTCTTCAGCGCGCAGCGGCGCGCCCGCGCCCTCGGCATCTCATACCA

Basic information

species Zea mays
transcript GRMZM2G157316_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G157316_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g16330.1 (Oryza sativa), 3'ss of exon 1
gtaagacgctaccgcccctagatcgctggaattttgc--gtctcta----gcagctcgtgcttgtacagttt---tctgatcgagg---cggcactgat------gccgtttcccctt--ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCGTCGTCTTCAGCGCGCAGCGGCGCGCCCGCGCCCTCGGCATCTCATACCA
||||| |||  || |||      | ||   |||| ||  |  || |    | |  ||   |  ||  | |      |||| ||      ||||  |  |      |   |||| | ||  |||||| ||||||||||||||||||||||||| |||||| |||| ||||||||||| ||||||||||||||||| ||||| |||||||||||||||| | ||||  ||||
gtaag-cgccgcctccctccccccactcagatttcgccggaatcgagaccggaattccgccccgtttactccgtgcctgaccgcctccccggcgtttgtttgtttgttttttcgctttggttggttgcagAGAACGCGCCGGTGACGCGGGCCGTCGTCCTCGCCAGCGGCCTCCTCTCCGTCGTCTTCAGCGCCCAGCGCCGCGCCCGCGCCCTCGTCCTCTCCCACCA
















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|148962075|gb|EE012879.2|EE012879
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|76281436|gb|DV021004.1|DV021004
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|211523741|gb|FL258543.1|FL258543
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|71305646|gb|DR788962.1|DR788962
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|211463964|gb|FL402449.1|FL402449
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|71448463|gb|DR829513.1|DR829513
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|93014294|gb|EB639814.1|EB639814
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|149102614|gb|EE188245.2|EE188245
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|71305918|gb|DR789090.1|DR789090
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|93013209|gb|EB638729.1|EB638729
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|148999432|gb|EE036384.2|EE036384
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|211523736|gb|FL258538.1|FL258538
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|74237515|gb|DT645429.1|DT645429
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGACTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|50336165|gb|CO531291.1|CO531291
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|93013635|gb|EB639155.1|EB639155
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|211523737|gb|FL258539.1|FL258539
EST:     CGGACCAGCGGCCTCCGTCTGAAGAATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CGGACCAGCGGCCTCCGTCTGAAG-ATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|149080963|gb|EE170059.2|EE170059
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|149105307|gb|EE290799.2|EE290799
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|86470247|gb|DY236617.1|DY236617
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCGGGGCGGCGTCTCCGGATTCC                         AAAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|71327756|gb|DR800512.1|DR800512
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|89762002|gb|DY689797.1|DY689797
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
EST: gi|211523740|gb|FL258542.1|FL258542
EST:     CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCC                         AGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG
genomic: CCGGACCAGCGGCCTCCGTCTGAAGATGCAGGGCGGCGTCTCCGGATTCCgtaagacgct ... ttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtacagttttctgatcgaggcggcactgatgccgtttccccttttggttccagAGAACGCGCCGGTGACGCGGGCGGTCGTCGTCGCGAGCGGCCTCCTGTCCGTCGTCTTCAGCGCGCAGCGGCGCGCCCGCGCCCTCGGCATCTCATACCA
                         cactgat  putative branch site (score: 3)
                                    tttccccttttggttc  putative PPT