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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAG

Basic information

species Arabidopsis thaliana
transcript AT5G27720.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G27720.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g15310.1 (Oryza sativa), 3'ss of exon 3
gttatcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatatt-ttgctgcttgattactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAG
      || ||| |||   | | | |    || |  ||    | |  ||  |  |  | |||    |   ||    |     ||| ||  || ||| | | |  |||| || ||||  |||||||||||||| |||||||| |||||||| ||||| |||||||| ||||| ||||| ||||||
--cgaattgtgtgttctcttttgggtc---atttggttccaattggtttgatcgtttagtttgtgatgaatgctgtttcctcattgtttatggttg-tcattgcagGATGGTGATAAGTTTTGGAGGATGCCAGAATGTTACATCCGTGGGAACACCATCAAGTATCTTCGGGTTCCTGATGAG

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G095114_T01 (Zea mays), 3'ss of exon 3
------------------------------------------------------gttatct---tatgttttcatatgttgatacaaat---atactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAG
                                                       |||  |   |   || |   || ||||    |||   ||| |    |||         |   | || ||| |  |    | | |    || |  ||  ||   | |  |||| || || |  |||||||||||||| || ||||| || ||||| ||||| || ||||| ||||||||||| ||||||
gtgaaaaatctggtgcccttgattcccattgtgataggttcttgttagcaaaagattagttaagtgcattgtttgattttgaggtgaatctgatagtaacattatggggtaccagttatttctgtctttcctgtagtaaaggtttataatggctgga-attgcagGATGGTGACAAGTTTTGGAGGATGCCAGAGTGTTACATTCGTGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G038606_T02 (Zea mays), 3'ss of exon 3
gttatcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctg-cttgattactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAG
    |  |     |||| ||  | | |          |   |||  || |   || |  || || ||  |    | | ||   || || || || ||  | |  ||||||| || |  |||||||||||||| || ||||| || || || ||||| || ||||| ||||||||||| ||||||
----tggttgaaattcaaatagtaacaatgtggggtctcagttatcctgctctattagcttgtgagtttcctgtagttatggtttatgatggctcga--attgcagGACGGTGACAAGTTTTGGAGGATGCCAGAGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G39780.1 (Glycine max), 3'ss of exon 3
gttatcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAG
                  |||||| |   |  || | ||| ||    || ||  |    |  | ||    |||     |  | |  |     |||   | | ||||||||||||||||||||||||||||| ||||| ||||| || || || ||||||||||||||||||||||| ||||||
---------------gtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttgattgtgatggaaaggtttgatttcaattggcaa-tgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACAATCAAGTACCTTCGAGTTCCTGATGAG

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G37170.2 (Glycine max), 3'ss of exon 3
gttatcttatgttttcatatgttgatacaaatatactttgtttagacttcgtga---tgaaattttgtgtagctgacactcatatattttgctgcttgattactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAG
                  |||||| |   |  || | ||| ||    || ||     || ||||| ||   | ||  |      |  |||     ||| | | | ||||||||||||||||||||||||||||| ||||| || || || || || |||||||||||||||||||| || ||||||
---------------gtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttggttatgatggaaaaggcttgatttaaattttggtaa-tgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv07s0005g00230.t01 (Vitis vinifera), 3'ss of exon 5
gttatcttatgttttcatatgttgatacaaat-atactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAG
|| |||  |   ||| ||    || |     |  |  |||  ||    ||     ||| | ||  |||        |  ||  || || |  |    ||| | ||||| |||||||| |||||||| ||||| || || || |||||||| || ||||| || || ||||||||||| ||||||
gtaatca-actctttaattgactgttcttgtttgttgtttacttcttatttaccttgacagttcttgtttgctcttcaaattcatgtttcatccgatttaatgtagGATGGAGATAGGTTTTGGAGAATGCCTGAGTGCTACATCCGTGGGAATACAATTAAATATCTTCGAGTTCCTGATGAG

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|86050911|gb|DR346666.1|DR346666
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050917|gb|DR346672.1|DR346672
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|47831834|gb|CK121518.1|CK121518
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|47832106|gb|CK121790.1|CK121790
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|116449433|gb|EG492025.1|EG492025
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050907|gb|DR346662.1|DR346662
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|124916063|gb|EH989937.1|EH989937
EST:     ATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: ATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050915|gb|DR346670.1|DR346670
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|164121935|gb|ES162010.1|ES162010
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCG
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCG
EST: gi|86080718|gb|DR376475.1|DR376475
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050918|gb|DR346673.1|DR346673
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|116480858|gb|EG523450.1|EG523450
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050914|gb|DR346669.1|DR346669
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|116480849|gb|EG523441.1|EG523441
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050916|gb|DR346671.1|DR346671
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTA-CACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAG
                                              ttactct  CT-rich tract
                          tcatatatttt  TA-rich tract