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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtgtaaactggcgatgtttgcatcaccatctctgaaactattatctctgcatcatctgactactgtccatcaacaaaatttgcacaaattctagGACATTACGTTCCCCAGTTGGCAAGGAAGATCGTTGAGTTCAACAAGGCCTCACCATATCCTTTCATCAACCTCAAGGGGATCCTT

Basic information

species Oryza sativa
transcript LOC_Os02g55130.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g55130.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM5G879749_T02 (Zea mays), 3'ss of exon 4
----gtaatgt-gtaaactggcgatgtt----tgcatcaccatctctgaaactattatctctgcatcatctgactactg-----tccatcaacaaaatttgcacaaattc-tagGACATTACGTTCCCCAGTTGGCAAGGAAGATCGTTGAGTTCAACAAGGCCTCACCATATCCTTTCATCAACCTCAAGGGGATCCTT
    || ||||      ||| |  || |      ||    ||      |      | ||   |  |  |||   |  |      || |||     | |||||     | |  ||| || ||||| ||||||||||||||||||||||| |||| |||| ||||||| ||  | || ||||||||||||||||| ||||||
gtgagtcatgtcactcgctgccattgctgatccacagggacacacaccagctagctgtccaagagttttctttttttttatgcttcaatctgttcactttgcttgcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCTCGCCTCACCCCTTCATCAACCTCAAGGGAATCCTT
















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|58655220|gb|CK043900.1|CK043900
EST:     CCCACAGTATCGGCACCGGGATTTCTACATTGCTGGAGAAAGCTATGCTG                         GACATTACGTTCCCCAGTTGGCA
genomic: CCCACAGTATCGGCACCGGGATTTCTACATTGCTGGAGAAAGCTATGCTGgtaatgtgta ... caaattctagGACATTACGTTCCCCAGTTGGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatctctgcatcatctgactactgtccatcaacaaaatttgcacaaattctagGACATTACGTTCCCCAGTTGGCAAGGAAGATCGTTGAGTTCAACAAGGCCTCACCATATCCTTTCATCAACCTCAAGGGGATCCTT
              atctgac  putative branch site (score: 3)
                                aacaaaattt  TA-rich tract