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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtacattttgtaatgcatctctctgctttatgtgttcatgtagatcagtacagaaaatgatttcattattttgactccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACT

Basic information

species Zea mays
transcript GRMZM2G376727_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G376727_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g01307.2 (Oryza sativa), 3'ss of exon 2
gtgagtacattttgtaatgcatctctctgctttatgtgttcatgtagatcagtacagaaaatgatttcattattttgactccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACT
|||||| |||||  |   ||||||||||||| | ||  |   | ||      ||||| |||||| || ||  || |  || ||  ||||||| ||||||| | ||  ||| |||| |||||||||||  |||||||||||| || |||||||| ||  ||||||| || ||||||||||||||| ||
gtgagtgcatttcatgcagcatctctctgctatgtgattcattataaggtgttacaggaaatgactttatctttgttgcttct--agTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAGGTTTCAAGGTTCACCTGCGGTTATTACCTATCGTGTTCCCACAAAGGCT
















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|211340832|gb|FL479597.1|FL479597
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|15590113|gb|BI674729.1|BI674729
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|21987232|gb|BQ778760.1|BQ778760
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGGTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|211130311|gb|FL066378.1|FL066378
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|60354184|gb|DN221157.1|DN221157
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|30706031|gb|CD059006.1|CD059006
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|87156435|gb|DY401224.1|DY401224
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGGTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|60347341|gb|DN214314.1|DN214314
EST:     GAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGGTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: GAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|149106143|gb|EE291820.2|EE291820
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|60347158|gb|DN214131.1|DN214131
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|31611983|gb|CD568605.1|CD568605
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|74243940|gb|DT651854.1|DT651854
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|78081691|gb|DV510103.1|DV510103
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|7137614|gb|AW499182.1|AW499182
EST:     CTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGGTACACACACATATGTCCTGTATACCAAAACACAGGGCAG
genomic: CTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|211354953|gb|FL243593.1|FL243593
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|9255123|gb|BE345591.1|BE345591
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGGTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|60346405|gb|DN213378.1|DN213378
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|78080233|gb|DV508645.1|DV508645
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|78107599|gb|DV526017.1|DV526017
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|5006027|gb|AI712089.1|AI712089
EST:     TTGTCCCTGGAGAGAAATCGAAGCCATTGGAAAGGCTTGACCC                         TGGTGCCACTGGTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|24769483|gb|CA404612.1|CA404612
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|24765720|gb|CA400879.1|CA400879
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|78080443|gb|DV508855.1|DV508855
EST:     TTTGAGCTTGTCACTGGAGAGAAATAGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|211379488|gb|FL165247.1|FL165247
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|16919381|gb|BM074163.1|BM074163
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|60356569|gb|DN223542.1|DN223542
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|89249519|gb|DY621305.1|DY621305
EST:     GAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: GAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|8666106|gb|BE186922.1|BE186922
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGGTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|211354951|gb|FL243591.1|FL243591
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|60355754|gb|DN222727.1|DN222727
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtgttcatgtagatcagtacagaaaatgatttcattattttgactccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACT
                                        ttttgac  putative branch site (score: 3)
                                              ctccttc  CT-rich tract
                       agaaaatgatttcatt  TA-rich tract