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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgacaaggcttcaccctccgtagcaaaaatttgccaacattatcttacctacctgtctgccaacttctgttttcctgacgtgctaagggatgttagaaatttcctcatcaatattagtttcagacaaatttgtgtgaggttggttacctatcagatgaaattatctgatcaagctcattgtttatgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCTAGCAGAGACTACAATGTAGACATGATTCCAAAG

Basic information

species Oryza sativa
transcript LOC_Os07g16970.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g16970.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G047431_T01 (Zea mays), 3'ss of exon 2
gtgacaaggcttcaccctccgtagcaaaaatttgccaacattatcttacctacctgtctgccaacttctgttttcctgacgtgctaagggatgttagaaatttcctcatcaatattagtttcagacaaatttgtgtgaggttggttacctatcagatgaaattatctgatcaagctcattgtttatgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCTAGCAGAGACTACAATGTAGACATGATTCCAAAG
                                                                                         | | ||      |  ||  |  ||       ||     | | |   ||  ||| || |  |        ||| |||    | ||    | || |    | ||| |||| |||||| ||||||| |||||||  || || || ||||| || || ||||||||||||||||| || || ||| ||||||||
-----------------------------------------------------------------------------------------ggtttttttgtctatcttgtttatgaggcgctctttggattctacctgctgttcgtaa--tgatgtcctaaactatgctgtaaattaaactgct---atttgc-agCTCTGGAAACGGTTCAAGGGTGAAGAAACACCGCCTGCGCACATAGGAGCTAGCAGAGACTACAACGTTGATATGGTTCCAAAG
















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|29624786|gb|CB629797.1|CB629797
EST:     ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAG                         CTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
genomic: ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
EST: gi|88735266|gb|CI758774.1|CI758774
EST:     ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAG                         CTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
genomic: ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
EST: gi|88408099|gb|CI601577.1|CI601577
EST:     ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAG                         CTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
genomic: ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
EST: gi|88735048|gb|CI758556.1|CI758556
EST:     ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAG                         CTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
genomic: ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
EST: gi|29616692|gb|CB621704.1|CB621704
EST:     ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAG                         CTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
genomic: ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
EST: gi|88407824|gb|CI588853.1|CI588853
EST:     ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAG                         CTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
genomic: ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
EST: gi|88744533|gb|CI767893.1|CI767893
EST:     ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAG                         CTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
genomic: ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
EST: gi|58692091|gb|CK080778.1|CK080778
EST:     ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAG                         CTATGGAACAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
genomic: ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
EST: gi|58655667|gb|CK044347.1|CK044347
EST:     CTACGGTGGAGACTCCACATCGCTCAA-CTGAATCAG                         CTATGGAAAAGGTTCAAAGGTGAAGGTACGCGGCCGGCGCAAATTGGGGCT
genomic: CTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
EST: gi|88407852|gb|CI588881.1|CI588881
EST:     ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAG                         CTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT
genomic: ACAGGAATGATTACTACGGTGGAGACTCCACATCGCTCAACCTGAATCAGgtgacaaggc ... tgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggttacctatcagatgaaattatctgatcaagctcattgtttatgtatgccagCTATGGAAAAGGTTCAAAGGTGAAGGTACTCCCCCGGCGCAAATTGGGGCTAGCAGAGACTACAATGTAGACATGATTCCAAAG
                       atctgat  putative branch site (score: 4)
               atgaaattat  TA-rich tract