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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCGTCTTGTCCTGGAAGATGGTTCAGTGTGGAGGGCCAAGTCTTTTGGCGCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcattttggactgagttatgtttttgtctgggtagtggcatgttttgcatgtcttggttggttgtttttttctgcgaggaaaataaagccttgta...

Basic information

species Zea mays
transcript GRMZM2G147450_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147450_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 3
CTCGTCTTGTCCTGGAAGATGGTTCAGTGTGGAGGGCCAAGTCTTTTGGCGCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcattttg--gactgagttatgtttttgtctgggtagtggcatgttttgcatgtcttggttggttgtttttttctgcgaggaaaataa--agccttgta--------------------------------------------------------------------
|||| || || || || ||||||||||| |||| ||||||||||||||| || |||||||||||||| |||||||| || || || |||||  ||||||||||| |||  |    |  ||||| |||   ||   ||  |  ||   || ||   ||||  |  |||     || || |||  ||  ||| ||  | |||  |                                                                     
CTCGGCTCGTTCTTGAGGATGGTTCAGTTTGGAAGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaactaaccgtttgagtgatggcatt---tgtttcctgttgtggttgagatgtgcttattg-----ttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcag

upper sequence: GRMZM2G147450_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 2
CTCGTCTTGTCCTGGAAGATGGTTCAGTGTGGAGGGCCAAGTCTTTTGGCGCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcattt-tggactgagttatgtttttgtctgggtagtggcatgttttgcatgtct--tggttggttgtttttttctgc-gaggaaaataaagccttgta--
|| | ||||| || |||||||||||| | ||||| || || || ||||| || ||||| || ||||| || || ||||||||||| |||||| ||||||||| ||  |  | || |    |  |||| | | |||   |  |||| |   |||||||     |   ||| || |||| | ||  | |     |      || |   
CTAGACTTGTGCTTGAAGATGGTTCAATTTGGAGAGCAAAATCGTTTGGTGCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaactatgaatcttgggatgtgtgtttctttttcatggctttgcttgcatgctgaatatgtggctggttttctttgttgtgttgtgtgtgtgattatcag

upper sequence: GRMZM2G147450_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G15510.3 (Glycine max), 5'ss of exon 2
CTCGTCTTGTCCTGGAAGATGGTTCAGTGTGGAGGGCCAAGTCTTTTGGCGCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagt-cattttggact----gagttatgtttttgtctgggtagtggc-atgttttgcatgtcttggttggttgtttttttctgcgaggaaaataaagccttgta
|| | ||||| || |||||||||||| | ||||  || || || ||||| || || || || ||||| || |||||||||||||| |||||| ||||||||| ||   | | || |      ||    |||| || | | |||  ||      |  |  |||  | |||||||| || |||  || |  |    |       |   
CTAGACTTGTGCTTGAAGATGGTTCAATTTGGAAAGCAAAATCGTTTGGTGCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatactatgaatcttgggatgcgtgttctttttttggttttgcttgcatgctaaatgagt-ggttggtt-ttctttgttgtgttgtgtgtgtgattctcag

upper sequence: GRMZM2G147450_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ19894 (Selaginella moellendorffii), 5'ss of exon 2
CTCGTCTTGTCCTGGAAGATGGTTCAGTGTGGAGGGCCAAGTCTTTTGGCGCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcattttggactgagttatgtttttgtctgggtagtggcatgttttgcatgtcttggttggttgtttttttctgcgaggaaaataaagccttgta
|  | ||||| ||  | ||||| ||||||||||  | |||||||||||| || || ||||| |||||||| |||||||||||||| ||  |  |||| ||||| ||  || |      | ||  | |     |     | |   | || ||||||||| |     |                                  
CAAGGCTTGTTCTTCAGGATGGATCAGTGTGGAATGGCAAGTCTTTTGGAGCTTCTGGAACGCAAGTCGGAGAAGTTGTTTTCAATACTGCCATGACCGGgtatgtatttctctttccattttggatcacaac----cactttaaagtgttgcatgtccttcccag----------------------------------

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|89252056|gb|DY623842.1|DY623842
EST:     GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGG                         CTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
genomic: GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcatt ... gtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
EST: gi|148945107|gb|EC890301.2|EC890301
EST:     GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGG                         CTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
genomic: GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcatt ... gtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
EST: gi|148934462|gb|EC878501.2|EC878501
EST:     GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGG                         CTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
genomic: GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcatt ... gtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT