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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctactaataacactattatttacaaagttgtaccatgagctgttcctccaactaaaaatttccatgagttaagttaatgttaacttgtttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATTTTTCCAAACTAAAAAGGACTGTGACAAGGTCACTCGTCAACTTAGAATG

Basic information

species Oryza sativa
transcript LOC_Os01g68320.4
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g68320.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G362850_T01 (Zea mays), 3'ss of exon 8
gtatctactaataaca--ctattatttacaaagttgtaccatgagctgtt------cctccaactaaaaatttccatgagttaagttaatgttaacttgtttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATTTTTCCAAACTAAAAAGGACTGTGACAAGGTCACTCGTCAACTTAGAATG
|||| ||    | ||   || ||   || ||| || ||   | |  |  |      | | | | || ||||   || |   | |||| || || || | ||||  ||||||||||||| || || ||||||||||||||||| ||| | ||||||||||| |||||||| |||||||| || || ||| |||| || || |||||||||
gtatgtatggttgacggtcttttgactaaaaacttttatgctcacttactatgctactttcgattacaaatggacacggtgtgagttgattttcacctctttcccacagACTCAGTAAGCTCTTGTCTGATCTAATGGATGGGAGCCGTATCTTGATATTCTTCCAAACAAAAAAGGATTGCGATAAGATCACCCGGCAGCTTAGAATG
















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|29636635|gb|CB641644.1|CB641644
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29664446|gb|CB660721.1|CB660721
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29675369|gb|CB671644.1|CB671644
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|88417599|gb|CI581622.1|CI581622
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCC-AG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29645557|gb|CB650564.1|CB650564
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29633338|gb|CB638347.1|CB638347
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29673236|gb|CB669511.1|CB669511
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29644134|gb|CB649141.1|CB649141
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29677571|gb|CB673846.1|CB673846
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29640324|gb|CB645333.1|CB645333
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|218485924|gb|FG959170.1|FG959170
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTT-ATCTGATCTAATGGATG-AAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29675371|gb|CB671646.1|CB671646
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29638139|gb|CB643148.1|CB643148
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29678103|gb|CB674378.1|CB674378
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTANACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29633337|gb|CB638346.1|CB638346
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29670396|gb|CB666671.1|CB666671
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29679220|gb|CB675495.1|CB675495
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
EST: gi|29667787|gb|CB664062.1|CB664062
EST:     TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAG                         ACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT
genomic: TCCATACAGCAAATTATTGAGGTCATATCTGAACACGAAAAGTATCCCAGgtatctacta ... tttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctccaactaaaaatttccatgagttaagttaatgttaacttgtttcttacagACTCAGTAAACTTTTATCTGATCTAATGGATGGAAGCAGAATCTTGATATTTTTCCAAACTAAAAAGGACTGTGACAAGGTCACTCGTCAACTTAGAATG
                                   tgttaac  putative branch site (score: 2)
                                         cttgtttctt  CT-rich tract
                          ttaagttaatgttaa  TA-rich tract