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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatctacttgatctttgaaccatttctgtttgagattttctgtataattattatatattttcttctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTTATGTGTGCCTATGGAAAATACCAG

Basic information

species Oryza sativa
transcript LOC_Os04g59494.2
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g59494.2 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G376731_T01 (Zea mays), 3'ss of exon 15
--------------------------------------gttatctacttgatctttga-accatttctgtttgagattttctgtat---aattattatatattt-tcttctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTTATGTGTGCCTATGGAAAATACCAG
                                      |  |  | | | |   ||   |  ||   ||   |  | |||    ||   |||   || |||||  | |||| ||||||||| ||| ||||||| |||||||| ||||||| | | |||||||||||||| ||||||||||||||||||||||||
gttaatgacatatatagtatgctttgttttttccccctgggaattgcataagaattagtattatgcatgcaagtaagtttgcagattctaatctgtacatattggttttctattttcagGAAGCTTCTGAAGAATTAGTACCCCACTTGGAAGTAATTTTGCAGCACCTCATGTGTGCCTATGGAAAATACCAG

upper sequence: LOC_Os04g59494.2 (Oryza sativa), 3'ss of exon 15
lower sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 15
------gttatc-tacttgatctttgaaccatttctgtttgagattttctgtataattattatatattttct--tctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTTATGTGTGCCTATGGAAAATACCAG
      |||||  | |    |  ||    ||||||||| |     | | | | ||  |   |   ||| | |  | |    |||||||||||| ||| |||||| ||||||||||| ||||||| | || ||||| |||||||| | ||| || ||||||
gtttctgttattatgcagtgtaattattacatttctgtctttagatatatctctagatcccaatgattgtttgatttaccatcagGAGGCTGCAGAAAAGTTAGCACCACACTTGGAAATTATTCTACAACACCTAATGTGTGCTTTTGGGAAGTACCAG
















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|58668781|gb|CK057467.1|CK057467
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGACTTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|29626307|gb|CB631318.1|CB631318
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|29623086|gb|CB628097.1|CB628097
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|58611878|gb|CK039590.1|CK039590
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|58660018|gb|CK048698.1|CK048698
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|58667508|gb|CK056194.1|CK056194
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTGGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|58672477|gb|CK061163.1|CK061163
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|58666235|gb|CK054921.1|CK054921
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|58662883|gb|CK051569.1|CK051569
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|33678128|gb|CF306367.1|CF306367
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|58656826|gb|CK045506.1|CK045506
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGA
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGA
EST: gi|58663523|gb|CK052209.1|CK052209
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         GAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
EST: gi|58608786|gb|CK036819.1|CK036819
EST:     ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAG                         G---CTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT
genomic: ACAAAAGAGTGCAGGAGGCGGCGTGTTCGGCATTTGCAACGCTTGAAGAGgttatctact ... ctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatttctgtttgagattttctgtataattattatatattttcttctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTTATGTGTGCCTATGGAAAATACCAG
                                    tattttcttctgtttt  CT-rich tract
               attttctgtataatta  TA-rich tract