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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttctatcacaaatacactacatttatcctatattttcttaatctagtgcaaagttcacttacttgaattgatttacttcatcag

Basic information

species Oryza sativa
transcript LOC_Os03g16980.4
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G382038_T01 (Zea mays), 5'ss of exon 8
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttc-tatcacaaatacactacatttatcctatattttcttaatctag-tgcaaagttcacttac----ttgaattgatttacttc--atcag
|||||||||||| || |||||||||||||| |||||||| |||||||| |||||||  |||||||||||||| |||||||| || |||||||  | | ||| | | | || |  | |  ||||    |   ||||| |||  ||  |   |||||| |||||    || | || | ||  ||   |||||
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAATTGAGGCCTACTGGGGCAATGTTAATCCGATTGgtaaatttcttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacagtttttatttaactttttttctatcag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G157772_T02 (Zea mays), 5'ss of exon 4
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttctatcacaaatacactac-atttatcctatattttcttaatctag-tgcaaagttcacttac----ttgaattgatttacttc-atcag
||||||||| || || |||||||||||||| |||||||| |||||||| |||||||| |||||||||||||| ||||||||||| |||||||  | |||||      | ||  |  |  ||||    |   ||||| |||  ||  |   |||||| |||||    || | || | ||  ||| || ||
GATTTTGTTAACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgttcatctgaacattgaaaattatttgctttggtttttcataaattatctttcaagttctcttacagtttttatttaacttttttctattag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G177373_T02 (Zea mays), 5'ss of exon 7
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttc-tatcacaaatacactacatttatcctatattttcttaatctag-tgcaaagttcacttac----ttgaattgatttacttc--atcag
|||||||||||| || |||||||||||||| |||||||| |||||||| |||||||  |||||||||||||| |||||||| || |||||||  | ||||| | | | || |  | |  ||||    |   ||||| |||  ||  |   |||||| |||||    || | || | ||  ||   |||||
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAATTGAGGCCTACTGGGGCAATGTTAATCCGATTGgtaaatttgttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacagtttttatttaactttttttctatcag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G300412_T01 (Zea mays), 5'ss of exon 13
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttc-tatcacaaatacactacatttatcctatattttcttaatctag-tgcaaagttcacttac---ttgaattgatttacttc--atcag
|||||||||||| || |||||||||||||| |||||||| |||||||| |||||||  |||||||||||||| |||||||| || |||||||  | ||||| | | | |  |  | |  ||||    |   ||||| |||  ||  |   |||||| |||||   || | || | ||  ||   |||||
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAATTGAGGCCTACTGGGGCAATGTTAATCCGATTGgtaaatttgttcatctgaaatttgaaatttatttgctttggtttttcataaattatctttcaagttctcttacagttttatttaactttttttctatcag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 7
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttc-tatcacaaatacactacatttatcctatattttcttaatctagtgca-aagttcacttac----ttgaattgatttacttcatcag
|||||||||||| || || ||||||||||| ||||||||||||||||| |||||||| |||||||||||||| |||||||||||||||||||  | ||||| | | |||| | || || ||||    |  |||||| |||  ||      |||||  |||||    |||| |||||||  |  |||||
GATTTTGTTGACATCAACATCTGAAGTTTATGGTGATCCGCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgttcatctgacaattgcaatatatttgctttg-attttcataaattatcattcaagttatcttacggttttgatttgattttttctatcag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 6
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttc-tatcacaaatacactacatttatcctatattttcttaatctag-tgcaaagttcacttac----ttgaattgatttacttc--atcag
|||||||||||| || |||||||||||||| |||||||| |||||||| |||||||| |||||||||||||| ||||||||||| |||||||  | ||||| | | | || |  | |  ||||    |   ||||| |||  ||  |   |||||| |||||    || | || | ||  ||   |||||
GATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTGgtaaatttgttcatctgaaaattgaaatttatttgctttggtttttcataaattatctttcaagttctcttacaatttttatttaactttttttctatcag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 6
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttctatcacaaatacactacatttatcctatattttcttaatctagtgcaaagttcacttacttgaattgatttacttcatcag---
 |||||  | || || ||||||||||| || || ||||| ||    ||||||||| |||||  ||||||||||||||| ||||| |||||||   ||    | |  |  ||    || |   ||| | |    | | | | |  |   |  ||     |||| |  || ||    | ||||    
AATTTTACTAACCTCAACCTCTGAAGTGTATGGAGATCCTCTCATCCACCCTCAACCAGAGAGCTACTGGGGAAATGTCAACCCTATTGgtaaacctcaaatgtt-ctcatcttatagaggaatcttcttgcatttcagttt--ttacagctttgtaaacttaacctggttgctattatcaaaag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 7
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttctatcacaaatacactacatttatcctatattttcttaatctagtgcaaagttcacttacttgaattgatttacttcatcag--------
||| ||| | || || || || ||||| || || ||||| |||||||| || ||||| |||  ||| |||||||||||||||||||| ||||  |   |  | |||    |    ||  ||| |  | |||||    ||   |     ||    |   |   |||   |  ||       |         
GATATTGCTTACATCAACTTCAGAAGTATATGGAGATCCTCTTGAGCATCCCCAAACTGAGAGCTATTGGGGAAATGTTAACCCAATAGgtatttgcatctt-tcatggttttcttaggtttgttttttatttaaaaaaaaaaaaaggaaaagaaaagaaaagaaggaaaataggatgaaaaatctctat

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 7
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 7
GATTTTGTTGACTTCGACCTCTGAAGTTTACGGTGATCCGCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgttcta--tcaca-----aatacacta-catttatcctatattttcttaa-tctagtgcaaagttcacttacttgaattgatttacttcatcag-------------------
|||| |  | || || |||||||||||||| || |||||  | ||||| ||||| |||||||  ||||||||||| || |||||||||||||  ||      |  | |||       | ||| | ||       |  | ||||| || |||  | || | |     |||   || |   |||| | | |                     
GATTCTTCTCACGTCTACCTCTGAAGTTTATGGAGATCCTTTGGAGCATCCTCAGACAGAGGAATACTGGGGAAACGTAAACCCAATTGgtaaatccaactcacgttacacgcttggtgcaccatcacgctctgtgcagtttctgaactctgatacacaatcattctacacaaaata--ttaccttaacgttgcttcttgtcttgtgtag

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|58677155|gb|CK065842.1|CK065842
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGT
EST: gi|33680606|gb|CF308845.1|CF308845
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|58678023|gb|CK066710.1|CK066710
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAA
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAA
EST: gi|30229035|gb|CB966926.1|CB966926
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|163923367|gb|EG711100.1|EG711100
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGT
EST: gi|38478163|gb|CF962296.1|CF962296
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|163927504|gb|EG710716.1|EG710716
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|30226568|gb|CB964460.1|CB964460
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|313080404|gb|HO213412.1|HO213412
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATTACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|33675428|gb|CF303667.1|CF303667
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|29668646|gb|CB664921.1|CB664921
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|29637729|gb|CB642738.1|CB642738
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|58672962|gb|CK061648.1|CK061648
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|30226636|gb|CB964528.1|CB964528
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|58686439|gb|CK075126.1|CK075126
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACG
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACG
EST: gi|58659240|gb|CK047920.1|CK047920
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|58666035|gb|CK054721.1|CK054721
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGAT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGAT
EST: gi|58659773|gb|CK048453.1|CK048453
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|58590735|gb|CF989043.1|CF989043
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|33380802|gb|CF196145.1|CF196145
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|30228342|gb|CB966233.1|CB966233
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTACGCGTGTCGCAGAAA
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAA
EST: gi|58656016|gb|CK044696.1|CK044696
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|29668686|gb|CB664961.1|CB664961
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
EST: gi|14981678|gb|BI306356.1|BI306356
EST:     GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTG                         GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT
genomic: GCTTGAGCACCCTCAAACAGAGGCCTACTGGGGAAATGTTAACCCAATTGgtacgtctgt ... acttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGT