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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagtgtaccatgattgagagcacatgaattgatattcagtaagaaaattcacctattggctgctattaaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG

Basic information

species Zea mays
transcript GRMZM2G069008_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069008_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g03910.1 (Oryza sativa), 3'ss of exon 3
-----gtatagtgtaccatgattgagagcacatgaattgatattcagtaagaaaattcacctattggctgctattaaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG
      |||  |     |   |  |  || |||    || |||| || |       |    ||| | | ||| | |||| | ||||||||||||||| ||||||||||  | ||||| || ||||||||||||||||| || ||||| || |||||||||||||| ||||||||||||
gtatgttatcatcagttactgtgaatggctcatattctggtatt-agaaccttgtgttgagtatcgaccgctctgaaaattttagGTTAGAGTTCCTGTTGGAAAATTTATATTGGAACTACCTGCTGGGATGCTAGACGATGAAAAGGGAGATTTTGTTGGCACTGCAGTCCGTGAG

upper sequence: GRMZM2G069008_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G04160.1 (Glycine max), 3'ss of exon 4
------------gtatagtgtaccatgattgagagcacatgaatt--------gatattcagt--aagaaaattcacctattggctgctattaaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG
            |  | ||||    |  ||  ||| |  |  |||        ||| |||| |  | |   ||||   | |||| |  | |||    |  |||  || |||||| |||||| |  | | |||||  |||||||||| ||| | ||||| || ||||||||||||||||| || ||||| ||||||
gtagacactggtgccttgtgttttttttttttgagaaattatatttttaactggattttcattttatggctattcttatgttggttattcttatttata-agGCAAGGGTTCCTGTTGGAAGAAACATTTTGGAATTGCCTGCTGGAATGTTGGATGATGACAAAGGTGATTTTGTTGGTACTGCAGTGCGTGAG

upper sequence: GRMZM2G069008_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G04150.1 (Glycine max), 3'ss of exon 4
--------------------gtatagtgtaccatgattgagagcacatgaattgatattcag--taagaaaattcacctattggctgctattaaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG
                    || |  | |    | ||| | |    || | | ||| ||||   || |   |||    | |||| |  | |||    |  |||  || |||||| |||||| | |  | |||||  |||||||||| ||| | ||||| || ||||||||||||||||| || ||||| ||||||
gtagatgctggtgccttgctgtttttttttatttaatt-atattttataactggattttcatgttatggctattgttatgttggatattcttatttgta-agGCAAGGGTTCCTGTTGGAAGAATTATTTTGGAATTGCCTGCTGGAATGTTGGATGATGACAAAGGTGATTTTGTTGGTACTGCAGTTCGTGAG

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|78087423|gb|DV515816.1|DV515816
EST:     TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|148991429|gb|EE032931.2|EE032931
EST:     GAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: GAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|45847993|gb|CN071936.1|CN071936
EST:     ACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: ACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|149074764|gb|EE163194.2|EE163194
EST:     TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|91054278|gb|EB164696.1|EB164696
EST:     TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|29543762|gb|CB604142.1|CB604142
EST:     TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|148942502|gb|EC887517.2|EC887517
EST:     TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|91054277|gb|EB164695.1|EB164695
EST:     TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|29544119|gb|CB604499.1|CB604499
EST:     AGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: AGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|31355362|gb|CD439719.1|CD439719
EST:     TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|149096585|gb|EE182343.2|EE182343
EST:     TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TGATTCTTTTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|78082236|gb|DV510648.1|DV510648
EST:     TGGAGTCGAATGGAGAAACATATGCTGTGCTTTCCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
EST: gi|113703128|gb|EE680632.1|EE680632
EST:     TTGGGGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAG                         GTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA
genomic: TTGGAGTCGAATGGAGAAACATATGCTGTGCTTACCGAACAGgtatagtgta ... aaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgaattgatattcagtaagaaaattcacctattggctgctattaaaactgtagGTTAGAGTTCCTATTGGAAAATTCCTGTTGGAGCTGCCTGCTGGGATGCTAGATGACGAAAAAGGTGATTTTGTTGGCACCGCAGTCCGTGAG
    aattgat  putative branch site (score: 4)
                 taagaaaatt  TA-rich tract