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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgcttttaattgttcttgagagctgtacatatgcggaatttaaggcaggcagattttgattagatttttgttcgtcactggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTGGGTACAAAAGACTTCTGGGGAAGCCTATCTCCACACTCTCAGTTAGCTT

Basic information

species Zea mays
transcript GRMZM2G158489_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158489_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g09000.1 (Oryza sativa), 3'ss of exon 6
gtgtgcttttaattgttcttgagagctgtacatatgcggaatttaaggcaggcagattttgattagatttttgttcgtcactggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTGGGTACAAAAGACTTCTGGGGAAGCCTATCTCCACACTCTCAGTTAGCTT
|| | ||||  |||||  |  |||  |  |  |||||  |        |||     ||||   || || |   || |||| |||| |||||  ||||||||| || ||||||||||||||||| || |||    ||||||| ||||| ||||||||||| || |||||||||||||| ||||||||| |
gtatactttctattgtggtccagaaatagatttatgcatat-------cagatgatttttctatatatgtgc-tttgtcattggaacagGTAACAAAGTTGTAACTGTTGTCTGGAACATAAGTGACTGGAGTCGAATTGGATACAAGAGACTTCTGGGAAAACCTATCTCCACACTTTCAGTTAGCAT
















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|211501284|gb|FL248092.1|FL248092
EST:     ATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACTGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: ATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|76010774|gb|DT937944.1|DT937944
EST:     CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|32912764|gb|CF017576.1|CF017576
EST:     CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACCGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|78079988|gb|DV508400.1|DV508400
EST:     TTTTTTAGGGATGGCATGAAACCGTTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATGGGGAGAGAATTG
genomic: TTTTCTAGGGATGGCATGAAACCG-TTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|78115282|gb|DV533670.1|DV533670
EST:     CTTTTCTAGGGATGGCATGAAACCGTTCATTTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|76287602|gb|DV027170.1|DV027170
EST:     CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|32834098|gb|CD973776.1|CD973776
EST:     CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACTGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|91053037|gb|EB163455.1|EB163455
EST:     GGCATGAAACCGTTCCTGTTTTGCCCTGTTGCAAAAG                         GTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: GGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|74237401|gb|DT645315.1|DT645315
EST:     GGGAGGGCAAGAACCCGTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: GGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|86470686|gb|DY237056.1|DY237056
EST:     CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: CTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|74236583|gb|DT644497.1|DT644497
EST:     TTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: -TTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
EST: gi|88748364|gb|DY532505.1|DY532505
EST:     TAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG                         GTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG
genomic: TAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAGgtgtgctttt ... actggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcggaatttaaggcaggcagattttgattagatttttgttcgtcactggagcagGTCCCAAAGTTGTTACAGTTGTCTGGAACATAAGCGATTGGGAGAGAATTGGGTACAAAAGACTTCTGGGGAAGCCTATCTCCACACTCTCAGTTAGCTT
                      ttttgat  putative branch site (score: 4)
                     attttgattagatttt  TA-rich tract