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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggaaatacttgtatgttccactgaatggggttgtttccaactgatatttgttatattttgttaggcattatttgcatcattttcctttatttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCAACAAAACACATGCCAACACCTGAGCAATGGACTAATATTTTCAATCCAG

Basic information

species Zea mays
transcript GRMZM2G134396_T02
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 13
gtaagtggaaatacttgtatgttccactgaatggggttgtttccaactgatatttgttatattttgttaggcattatttgcatcattttcctttatttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCAACAAAACACATGCCAACACCTGAGCAATGGACTAATATTTTCAATCCAG
         | ||  | ||||    |||       ||   | ||   || ||| |  |  |       || ||| |    ||   ||| |   | ||| |||||||| |||||| ||||||| |||||||||||||||||||| || ||||||||||||||||||||||| ||||||||||||||||||||| ||||||||||||
--tcccattagtaactttatgcattactatgcctagtgtatgcc--ttgttatgttgtggagcggagcagtcatcaccatcaat-tttgctgctgttttcttcagGTCGTTGGGCTGGATTTAGTGGATGATGAAAGCAAACCAGAGAGACGCCCAACAAAACACATGCCTACACCTGAGCAATGGACTAATGTTTTCAATCCAG

upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 12
lower sequence: PP1S168_82V6.1 (Physcomitrella patens), 3'ss of exon 12
--------------------------------------------------------gtaagtggaaatacttgtatgttccactgaatggggt--tgtttccaactgatatttgttatatt----ttgttaggc-attatttgcatcattttcctttatttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCAACAAAACACATGCCAACACCTGAGCAATGGACTAATATTTTCAATCCAG
                                                        | |      |    |   |  | | | || ||| |||  |  |||   | |   | ||| |||      |  | |  | ||  |||| | |  |||||||| |       |||| || || || ||  ||||||||||||||||||| |||||||| || |||||||| ||||||| | ||||||   |||||   ||   ||| ||||| |
gtgagttgaaaaaactactaaattactgttcttctcagttttgcatcttcattcttgcacacattagccatctgaactacgattgcatgaggtgctccttcatgcggtgctctgtcatacaaaagtcatgatactatggtttgta-cgctttcctttgtgcgtactagGTGGTGGGATTTGACATGGTGGATGATGAAAGCAAGCCTGAAAGGCGGCCAACAAAGCACATGCAACCACCTGCAAAATGGGACAACCCTTTTAATCCGG

upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 12
lower sequence: PP1S77_89V6.1 (Physcomitrella patens), 3'ss of exon 12
--------------------------------------------------------------------gtaagtggaaat-acttgtatgttccactgaatggggttgtttccaactgata-tttgttat---attttgtt--aggcattatttgcatcattttcctttatttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCAACAAAACACATGCCAACACCTGAGCAATGGACTAATATTTTCAATCCAG
                                                                      || |||| |  | |||  | |  | |  | |||  | |     | |||||| |||| | |   |||  |||  |  | || |||    ||||||   |||  |   | |||||||||| || ||| ||||||||||||| ||||| |||||||| || ||||| || ||||||| | |||||| | |||||  ||||  |||||||||||
gttggtcaaaagcaaaaccaaacccccagcgtcatgcgtcttttcgtttacattcttgtccgctttctccaactggatacgatttgcttttgtcgcgtattgg--tcgaaataacctgataatttgctttcccattgggtttcaatccttctttcatgcattttttgttaaatgaat-agGTTGTTGGATTCGATATGGTGGATGATGAGAGCAAGCCTGAAAGGCGGCCAACGAAGCACATGCAACCACCTGCGAAATGGGATAATCCTTTCAATCCAG

upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 12
lower sequence: EFJ30909 (Selaginella moellendorffii), 3'ss of exon 11
gtaagtggaaatacttgtatgttccactgaatggggttgtttccaactgatatttgttatattttgttaggcattatttgcatcattttc-ctttatttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCAACAAAACACATGCCAACACCTGAGCAATGGACTAATATTTTCAATCCAG
                                                      | |||  || ||||   |   |  |  | | |  || ||  | ||  | |||||||| || || ||  ||||||| |||||||||||||| |||||||| ||||| || || ||||  || || || || |||   | |  |||||||||||
-----------------------------------------------------gtattactttgtgttcatctcgaactagagcttaatcactgaactttatgcagGTTGTCGGTTTTGACATGGTGGACGATGAAAGCAAACCCGAAAGACGGCCAACTAAGCATATGCAGACTCCCGAACAGTGGCAAATTTCTTTCAATCCAG

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|21987227|gb|BQ778755.1|BQ778755
EST:     TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAG                         GTTGTTGGGTTGGATTTGGGGGATGATGAAAGCAAACCTGAAAGACGCCCA
genomic: TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAGgtaagtggaa ... tttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
EST: gi|26557914|gb|CA830149.1|CA830149
EST:     TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAG                         GTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
genomic: TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAGgtaagtggaa ... tttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
EST: gi|74237693|gb|DT645607.1|DT645607
EST:     TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAG                         GTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
genomic: TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAGgtaagtggaa ... tttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
EST: gi|71299098|gb|DR785546.1|DR785546
EST:     TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAG                         GTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
genomic: TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAGgtaagtggaa ... tttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
EST: gi|32835884|gb|CD975562.1|CD975562
EST:     TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAG                         GTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
genomic: TAACTGTTGACCCAGCTTCACATCCTCAGCTCCATGTTTTCTTAAAACAGgtaagtggaa ... tttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
EST: gi|211424037|gb|FL301689.1|FL301689
EST:     CCTCAGCTCCATGTTTTCTTAAAACAG                         GTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
genomic: CCTCAGCTCCATGTTTTCTTAAAACAGgtaagtggaa ... tttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
EST: gi|211424039|gb|FL301691.1|FL301691
EST:     CCTCAGCTCCATGTTTTCTTAAAACAG                         GTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA
genomic: CCTCAGCTCCATGTTTTCTTAAAACAGgtaagtggaa ... tttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttgttatattttgttaggcattatttgcatcattttcctttatttacttcagGTTGTTGGGTTGGATTTGGTGGATGATGAAAGCAAACCTGAAAGACGCCCAACAAAACACATGCCAACACCTGAGCAATGGACTAATATTTTCAATCCAG
                                tcattttcctttattt  CT-rich tract
                                  attttcctttattta  TA-rich tract