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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCAATCATTTATTGCAACACCAGTACAATTTGATGAAATATCCAGCACCTCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAGgtaatgctcctgtttataagtctttcctgtaaagatggctaaattaataggcttctatttagggtttgtatctaaatattgcggaaatacgtatgttcag...

Basic information

species Zea mays
transcript GRMZM2G154221_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154221_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g12080.1 (Oryza sativa), 5'ss of exon 5
TTCAATCATTTATTGCAACACCAGTACAATTTGATGAAATATCCAGCACCTCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAGgtaatgctcctgtttataagtcttt-cctgtaaagatg--gctaaat-taataggcttctatttagggtttgtatctaaatattgcggaaatacgtatgttcag--
||||| |||||| |||| ||||| ||||||||||||||||||||||||||||||||||||||||||||||| || ||||| ||||| |||| |||||||||||| |  | || ||| ||||||   |||| |||| ||   ||   | || |||  |||  | ||  ||||      |||||||  |   |||  |   |||    
TTCAACCATTTACTGCAGCACCAATACAATTTGATGAAATATCCAGCACCTCCAAATGTTCCATTGGCTCCTATGCAAAACGGAATGCATCCTATGCCAGgtaaagtccatgcttacaagtctaggcctggaaagttgttactctgtctagtagatttcagtctaaagttt-----caaatattctgtttatat-tgctttcgtgt

upper sequence: GRMZM2G154221_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA07G06230.1 (Glycine max), 5'ss of exon 6
TTCAATCATTTATTGCAACACCAGTACAATTTGATGAAATATCCAGCACCTCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATA-TGCCAGgtaa-tgct--cctgtttataagtctttcctgtaaagatggctaaattaata-ggcttctatttaggg-tttgta-tctaaatattgcggaaatacgtatgttcag
 ||||||||||| |  | || |||||  || | ||||| | ||||   ||| |||| |||||||||||||||||||| |||||||| ||||  | |||| ||||| | ||  ||   | || ||||   | | | |   ||  |   | |||  |   | |||| | |  |||| | | |  ||       |   |  ||||     
-TCAATCATTTACTTGAGCATCAGTATCATCTCATGAAGTGTCCAATGCCTGcaaaggttccattggctccaatacagaatggaatccatcccaatgcctggtaaattcttgccctctcatcagtcag-catatgagtgtgtgtgtttgaatccgaaatatattcacgtctttgcaatttgcatgacttaaagtaaactatg-----

upper sequence: GRMZM2G154221_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA16G02860.2 (Glycine max), 5'ss of exon 5
TTCAATCATTTATTGCAACACCAGTACAATTTGATGAAATATCCAGCACCTCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAGgtaa-tgct--cctgtttataagtctttcctgtaaagatggctaaatt-aataggcttctatttagggtttgtatctaaatattgcggaaatacgtatgttcag
|||||||||||| |  | || |||||  || ||||||| | ||||   ||| |||| |||||||||||||||||||| |||||||| ||||  ||||| ||||| | ||  ||   | || ||| | |  | |     ||  |||||  || |    |  |  |        | |  |    ||   | ||   ||  |||   
TTCAATCATTTACTTGAGCATCAGTATCATCTGATGAAGTGTCCAATGCCTGcaaaggttccattggctccaatacagaatggaatccatccaatgcctggtaaattcttgccctctcatcagtgtgta-tatgtgtgtgtttaaatccaaaatatcttcacctctttgcaatttgcacgacttaaagtaaactgtgagtt---

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|33467119|gb|CF244168.1|CF244168
EST:     TCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAG                         TTAGCAATTTACCAATGGGGTATCCAGTACTTCCGCAGCCTATCATGCCGG
genomic: TCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAGgtaatgctcc ... tccagtgcagTTAGCAATTTACCAATGGGGTATCCAGTACTTCCGCAGCCTATCATGCCGG
EST: gi|50327503|gb|CO522629.1|CO522629
EST:     TCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAG                         TTAGCAATTTACCAATGGGGTATCCAGTACTTCCGCAGCCTATCATGCCGG
genomic: TCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAGgtaatgctcc ... tccagtgcagTTAGCAATTTACCAATGGGGTATCCAGTACTTCCGCAGCCTATCATGCCGG
EST: gi|78118653|gb|DV537037.1|DV537037
EST:     TCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAG                         TTAGCAATTTACCAATGGGGTATCCAGTACTTCCGCAGCCTATCATGCCGG
genomic: TCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAGgtaatgctcc ... tccagtgcagTTAGCAATTTACCAATGGGGTATCCAGTACTTCCGCAGCCTATCATGCCGG
EST: gi|78084282|gb|DV512675.1|DV512675
EST:     TCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAG                         TTAGCAATTTACCAATGGGGTATCCAGTACTTCCGCAGCCTATCATGCCGG
genomic: TCCAAATGTTCCATTGGCTCCAATACAAAATGGAATTCATCATATGCCAGgtaatgctcc ... tccagtgcagTTAGCAATTTACCAATGGGGTATCCAGTACTTCCGCAGCCTATCATGCCGG