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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctccctgtttgcactctgaatgttcagatgagcctacaaagaaagaaccaacaaatgtttatctgctttagaccgaactaggatcaatagcacacagagattctttggaatatctgttctgttgaaatgttgggcgactagttctgactcctgaacaatgttaacctgcatgtagGATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGTTTCTAAAGGACGGGGTCAACGACCGCACAGACAAATACGGTGGCAGTCT

Basic information

species Zea mays
transcript GRMZM2G087192_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G087192_T01 (Zea mays), 3'ss of exon 4
lower sequence: 13113.m00235 (Oryza sativa), 3'ss of exon 5
gtaagctcc--ctgtttgcactctgaatgttcagatgagcctacaaagaaagaaccaacaaatgttt--atctgctttagaccgaactaggatcaatagcacacagagattctttggaatat-ctgttctgttgaaatgttgggcgactagttctgactcctgaaca--atgtt-aacctg-catgtagGATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGTTTCTAAAGGACGGGGTCAACGACCGCACAGACAAATACGGTGGCAGTCT
|||| | ||  |   || || | |  |  | |||||      |  | |||       |   ||  |   |   |  ||    | |  |    | |     | || |||      | || ||  |   | |  | || | |||  | |||  |    ||  || | |   |||||  |  ||   |||||||||||||||||| ||||||||||||||||| |||||  |||| |||||||||||||| |||   ||||| || ||  | |||||||| ||||| ||  |
gtaaacgccatcctattacatttttcac-tccagatattttgattaggaacattttgaattatcctaaaacaggtattgtgtcaacttttttttatcttgatacggaggagtagtagattaaaccaatatccttaagtcttga-ctactgatggaaacatctaaccttcatgtttgatatgatctgtagGATTTGATGGTGTTGAAATCCATGGAGCTCATGGTTATTTGATCGATCAGTTTCTAAAAGACCAAGTCAATGATCGTTCTGACAAATATGGTGGGAGCTT

upper sequence: GRMZM2G087192_T01 (Zea mays), 3'ss of exon 4
lower sequence: EFJ25413 (Selaginella moellendorffii), 3'ss of exon 4
gtaagctccctgtttgcactctgaatgttcagatgagcctacaaagaaagaaccaacaaatgtttatctgctttagaccgaactaggatcaatagcacacagagattctttggaatatctgttctgttgaaatgttgggcgactagttctgactcctgaacaatgttaacctgcatgtagGATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGTTTCTAAAGGACGGGGTCAACGACCGCACAGACAAATACGGTGGCAGTCT
                                                                                                                     |  ||     | |  | || |     |  |  |      || |   | | || ||  | | ||| || |||||||| ||| ||||||||||||| |||||||| || || |||||| | |||||| |   ||| || || || ||  |||||||||||    |
--------------------------------------------------------------------------------------------------------------------gttggtgactcttatttcttagatctgtgatggtagagtttgtaatctatcaatctttacgcagGTTTCGATGGTGTAGAACTCCATGGAGCTCATGGTTACCTCATCGACCAGTTTTTCAAGGACAGCACCAATGATCGGACGGATGAATACGGTGGCTCCGT
















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|88757700|gb|DY541841.1|DY541841
EST:     GAAATGCGATTGAAGCTG                         GATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT
genomic: GAAATGCGATTGAAGCTGgtaagctccc ... ctgcatgtagGATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT
EST: gi|60397054|gb|DN229873.1|DN229873
EST:     GGGTAGCTGCTCGAAATGCGATTGAAGCTG                         GATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT
genomic: GGGTAGCTGCTCGAAATGCGATTGAAGCTGgtaagctccc ... ctgcatgtagGATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT
EST: gi|16927662|gb|BM080731.1|BM080731
EST:     AATGCGATTGAAGCTG                         GATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT
genomic: AATGCGATTGAAGCTGgtaagctccc ... ctgcatgtagGATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT
EST: gi|78113505|gb|DV531896.1|DV531896
EST:     GGTAGCTGCTCGAAATGCGATTGAAGCTG                         GATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT
genomic: GGTAGCTGCTCGAAATGCGATTGAAGCTGgtaagctccc ... ctgcatgtagGATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT
EST: gi|76017394|gb|DT944564.1|DT944564
EST:     GGGTAGCTGCTCGAAATGCGATTGAAGCTG                         GATTTGATGGTGTGGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT
genomic: GGGTAGCTGCTCGAAATGCGATTGAAGCTGgtaagctccc ... ctgcatgtagGATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgaaatgttgggcgactagttctgactcctgaacaatgttaacctgcatgtagGATTTGATGGTGTCGAAATCCATGGAGCTCACGGTTACCTGATTGATCAGTTTCTAAAGGACGGGGTCAACGACCGCACAGACAAATACGGTGGCAGTCT
                                      tgttaac  putative branch site (score: 2)
                                    aatgttaa  TA-rich tract