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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtacacccgtcttacgtgagcagtctaaacccgtccgtcgtcggcgcaggagaactctggttctgaatgtttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGACCCGGAGGTGAGCCGCGCGCTGTACGAGCGTTCGGCCAGCGCCGACAAGA

Basic information

species Zea mays
transcript GRMZM2G080320_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G080320_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g21310.1 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------------------gtacgtacacccgtcttacgtgagca--gtctaaacc-cgtccgtcgtcggcgcaggag---aactctggttctga-------atgtttgggc--gcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGACCCGGAGGTGAGCCGCGCGCTGTACGAGCGTTCGGCCAGCGCCGACAAGA
                                                             | | |  |||     | || |||| |   |||   ||  ||  |  | | |            | | || | ||||       ||||||      |||||||| ||||||||||||||| ||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||  | ||||||||||||||| 
gtatgtacccctcgtcttcaaatcaactcaatatatgcaccaattagttctcacatctttaggatg-gcactaagatcacttgagtatgatcttggccatgtaagatgacagtaagattatttgaatttgatcctgacaatgtaatgttttttttggcagGTGAAGCTGCCGTTCTTCGTGCTGCACGGCGACGCCGACACGGTGACGGACCCGGAGGTGAGCCGGGCGCTGTACGAGCGCGCCGCCAGCGCCGACAAGG
















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|31664393|gb|CD573118.1|CD573118
EST:     TGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: TGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|211301294|gb|FL411039.1|FL411039
EST:     CGCTGGAGATGCTCAGGGCCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|74236075|gb|DT643989.1|DT643989
EST:     CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|71324666|gb|DR799030.1|DR799030
EST:     TGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: TGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|71311760|gb|DR792325.1|DR792325
EST:     CGTTGGAGATGCTCAGGACCAGCAAGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|78075077|gb|DV503511.1|DV503511
EST:     CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|76011867|gb|DT939037.1|DT939037
EST:     CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|88748005|gb|DY532146.1|DY532146
EST:     CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCTTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|71442134|gb|DR823184.1|DR823184
EST:     CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|76933104|gb|DV173321.1|DV173321
EST:     CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|149075326|gb|EE163833.2|EE163833
EST:     AGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: AGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
EST: gi|148949769|gb|EC895252.2|EC895252
EST:     CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAG                         GTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC
genomic: CGTTGGAGATGCTCAGGACCAGCATGTACATAGAAGACAGCTTGTCACAGgtacgtacac ... ttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaacccgtccgtcgtcggcgcaggagaactctggttctgaatgtttgggcgcagGTGACGCTGCCGTTCTTCGTCCTGCACGGCGAGGCCGACACGGTGACGGACCCGGAGGTGAGCCGCGCGCTGTACGAGCGTTCGGCCAGCGCCGACAAGA
 gtctaaa  putative branch site (score: 3)
                                        aatgttt  TA-rich tract