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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcatgttactgtcttattatgatagaactaatgtgggtatccaaaatggttctgaagtggctatcatggaatctaaggacacacttgccttgattgtagattgtatgtgaactgtagttttgttacaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGGAAAACGCTATTGGAAAATAAGGTCATGTTTAAATCTCTACCATGACTGT

Basic information

species Zea mays
transcript GRMZM5G806449_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G806449_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g56850.4 (Oryza sativa), 3'ss of exon 1
gttagtcatgttactgtcttattatgatagaactaatgtgggtatccaaaatggttctgaagtggctatcatggaatctaaggacacacttgccttgattgtagattgtatgtgaactgtagttttgttacaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGGAAAACGCTATTGGAAAATAAGGTCATGTTTAAATCTCTACCATGACTGT
                               || ||       ||  |   || ||      | |  |  |      || | |   || |   || |  ||   ||||     ||| ||    | |  ||  | |||||||| | ||||||||||||||||| || || || || ||||||||||| ||||||| |||  |||||||||||                            
-------------------------------acaaactatttcatttagcttgcttgcatctttgtgagtacatgtactgaagtgtcatt---ctggggtgcttattg-----gaattgctactgttgtatgattgcagGATGCAAAGAATTTTGGGTGGGAAATCAATGGGGACATTAACTTCAACTGGAAAAGGCTGCTGGAAAATAAG----------------------------
















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|33942501|gb|CF349101.1|CF349101
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAG                         GATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
EST: gi|211337407|gb|FK980805.1|FK980805
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCTGGGGAAAATTTGAG                         GATTCGAAAAATTTT
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTT
EST: gi|211339796|gb|FK980812.1|FK980812
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCTGTGGAGAATTTGAG                         GATTCGAAGAATTTTGGGTGGGAGA
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGGAGA
EST: gi|211337405|gb|FK980803.1|FK980803
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCTGTGGAGAATTTGAG                         GATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
EST: gi|40485831|gb|CK394761.1|CK394761
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAG                         GATTCGAAGAATTTTGGGTGGGAGATTAACGGAAAATATTAACTTCAATTG
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGA-TATTAACTTCAATTG
EST: gi|33942302|gb|CF348902.1|CF348902
EST:     TACCTAAAAAGATACTCGCGTATGGTGCATCATTCCGTGGAGAATTTGAG                         GATTCGAAGAATTTTGGGGTGGGAGATTAACGGAGATATTA
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGG-TGGGAGATTAACGGAGATATTA
EST: gi|148945432|gb|EC890664.2|EC890664
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAG                         GATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
EST: gi|211337397|gb|FK980795.1|FK980795
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCTGTGGAGAATTTGAG                         GATTCGAAGAAATTTGGGTGGGAGATTAACGGAGATATT
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATT
EST: gi|211337400|gb|FK980798.1|FK980798
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCTGTGGAGAATTTGAG                         GATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
EST: gi|148969995|gb|EE020910.2|EE020910
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAG                         GATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGG
EST: gi|148960879|gb|EE011558.2|EE011558
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAG                         GATTCGAAGAATTTGGGGTGGG
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGG
EST: gi|111991059|gb|EE331961.1|EE331961
EST:     TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAG                         GATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAAATTG
genomic: TACCTAAAAAGATACTCGTGTATGGTGCATCATTCCGTGGAGAATTTGAGgttagtcatg ... acaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAA-TTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacacttgccttgattgtagattgtatgtgaactgtagttttgttacaaatgcagGATTCGAAGAATTTTGGGTGGGAGATTAACGGAGATATTAACTTCAATTGGAAAACGCTATTGGAAAATAAGGTCATGTTTAAATCTCTACCATGACTGT
        ccttgat  putative branch site (score: 5)
                                      ttttgtta  TA-rich tract