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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaaattatgaaaaatgctttactttgatcctttatccttctatattttagaatgaaatatgcacctatttactgttttgtggttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGGTTTCTTTAGAAGACCTGTATAATGGTACTACCAAAAAACTGTCTTTGTC

Basic information

species Oryza sativa
transcript LOC_Os02g43930.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g43930.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G118731_T01 (Zea mays), 3'ss of exon 3
gtaataaaattat---gaaaaatgctttactttgatcctttatcctt-ctatattttagaatgaaata-tgcacc---tatttactgttttgtggttgaaagtagGTAG------AGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGGTTTCTTTAGAAGACCTGTATAATGGTACTACCAAAAAACTGTCTTTGTC
||||| ||| |||   |     |  ||||  |  ||| ||  | | | ||    ||| || | ||||| | |||    ||||||  | ||| ||||| | ||  |||||      ||||| ||||||||||||||| ||||||||||| ||||||||||||||||| ||||| || ||||| ||||| || ||||| |||||         
gtaatcaaaatatcttgtggtgttgtttatatatatcgttgcttcatgcttccctttggattaaaatactacactggttatttatcggtttatggttaatagGTGGTAGCTCAAGAGGACGCAGACAAAAGCGTGGTGAAGATGTGGTGCATACTATGAAGGTTTCCTTAGACGATCTGTACAATGGGACAACCAAGAAACT---------

upper sequence: LOC_Os02g43930.3 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv15s0021g02090.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------gtaataaaattatgaaaaatgctttactttgatcctttatccttctatattttagaatgaaatatgcacctatttactg--------ttttgtggttgaaagtagGT--AGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGGTTTCTTTAGAAGACCTGTATAATGGTACTACCAAAAAACTGTCTTTGTC
                                 || | |  || | |||  ||   |  |||  |   |     |     | |||  ||| | ||||  ||  |||  |          |||||| | ||   |||| |  ||||||   || || || || || |||||||| || |||||| ||||||||||||| || ||| |||||||||| || | |||| ||           
gtaagaggatgcttacttaaatttcttgatctttatttattttttcaaatgtgtacttatttcctgtctacctttaaagaaattttcaattatatatttactgattcccaagtatctaattttgtagGTGGTGGTAGCTCAAGAGGAAGAAGGCAGAAACGAGGTGAAGATGTTGTGCATACTTTGAAGGTTTCTTTGGAGGACTTGTATAATGGCAC-ATCAAAGAA-----------
















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|29673001|gb|CB669276.1|CB669276
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|218492553|gb|FG956401.1|FG956401
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58661241|gb|CK049921.1|CK049921
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58677822|gb|CK066509.1|CK066509
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58666150|gb|CK054836.1|CK054836
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58601753|gb|CK012281.1|CK012281
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|27577056|gb|CA999750.1|CA999750
EST:     ATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: ATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58601372|gb|CK011900.1|CK011900
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58658625|gb|CK047305.1|CK047305
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58663897|gb|CK052583.1|CK052583
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|33797209|gb|CF324468.1|CF324468
EST:     TATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58672684|gb|CK061370.1|CK061370
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|29627563|gb|CB632574.1|CB632574
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|218489299|gb|FG965759.1|FG965759
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58695486|gb|CK084173.1|CK084173
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58664824|gb|CK053510.1|CK053510
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAAGCGTGGCGAAGATGTGGTACATACTATGAAG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAA-GCGTGGCGAAGATGTGGTACATACTATGAAG
EST: gi|29619928|gb|CB624940.1|CB624940
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|13420811|gb|AU174901.1|AU174901
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|33796281|gb|CF324007.1|CF324007
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|33795773|gb|CF323756.1|CF323756
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         T
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtag-
EST: gi|33795773|gb|CF323756.1|CF323756
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         T
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtag-
EST: gi|33795773|gb|CF323756.1|CF323756
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         T
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtag-
EST: gi|27576325|gb|CA999019.1|CA999019
EST:     ATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: ATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|58687630|gb|CK076317.1|CK076317
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|29683463|gb|CB679738.1|CB679738
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGG
EST: gi|29631437|gb|CB636446.1|CB636446
EST:     TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGG                         GTAGAGGACACAGACAAAAGCGTGGCG
genomic: TCCCTTCGATTTATTTGAGCAAATTTTTCAGAATCGTGGTGGCTTTGGGGgtaataaaat ... ttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctatattttagaatgaaatatgcacctatttactgttttgtggttgaaagtagGTAGAGGACACAGACAAAAGCGTGGCGAAGATGTGGTACATACTATGAAGGTTTCTTTAGAAGACCTGTATAATGGTACTACCAAAAAACTGTCTTTGTC
     tattttagaatgaaat  TA-rich tract