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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtcaagtatgcatttccttgtttgttacaagttatttggtatctgttatgactgatgaagttcgtttaggaacaaatctgacactcagtttcactatagGATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAGAAGGCACCATTGAAACCTCCAGTGAGGAAGGCGCTCGCAATGTTCAGCG

Basic information

species Zea mays
transcript GRMZM2G160996_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G160996_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g02360.1 (Oryza sativa), 3'ss of exon 4
tgtcaagtatgcatttccttgtttgt-tacaagttatttggtatctgttatgactgatgaagttcgtttaggaacaaatctgacactcagt----ttcactatagGATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAGAAGGCACCATTGAAACCTCCAGTGAGGAAGGCGCTCGCAATGTTCAGCG
       ||| |       |||  ||  | | | | |||  |     || ||  |    |   |     |   |   || | ||  | | |    ||| |||||||| |||||||||||||| || |  ||||||||||||||  | ||||| ||||| | |||| |||||||||||||||||||||| || ||||||||||| |
-----gatattctccattctgtgggtgcatatgcttttttttcctgtttttgtatcgcaatagttaagcaactatttatttaaccattaataatattctctatagGACGATGATTTCTTGGGTGTCGAGGACATATTTTCGCACAGCGGTGAAAAGAAAGTACCACTGAAACCTCCAGTGAGGAAGGCCCTTGCAATGTTCAGTG
















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|67023296|gb|CO452045.1|CO452045
EST:     ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAG                         GATGATGATTTTCTTGGGCGTGTTCGACATATTTTCGCATGTTGGTGAT
genomic: ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAGgttagtgcgc ... ttcactatagGATGATGATTT-CTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGAT
EST: gi|211203702|gb|FL472025.1|FL472025
EST:     ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAG                         GATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAG
genomic: ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAGgttagtgcgc ... ttcactatagGATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAG
EST: gi|211260639|gb|FL352273.1|FL352273
EST:     ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAG                         GATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAG
genomic: ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAGgttagtgcgc ... ttcactatagGATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAG
EST: gi|60355783|gb|DN222756.1|DN222756
EST:     ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAG                         GATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAG
genomic: ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAGgttagtgcgc ... ttcactatagGATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAG
EST: gi|60394073|gb|DN226943.1|DN226943
EST:     ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAG                         GATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAG
genomic: ATCAACTTCCTCAGAAGGTTCTTCATCCTAAACTGAAGAAGTCAAACAAGgttagtgcgc ... ttcactatagGATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttatgactgatgaagttcgtttaggaacaaatctgacactcagtttcactatagGATGATGATTTCTTGGGCGTGGTCGACATATTTTCGCATGGTGGTGATAAGAAGGCACCATTGAAACCTCCAGTGAGGAAGGCGCTCGCAATGTTCAGCG
                               atctgac  putative branch site (score: 3)
                                            tttcact  putative PPT
                          aacaaat  TA-rich tract