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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcaaaaccctcacatctattttatttactagtcaatgttatcgtgttgcttgtagtgagtgtcttttgtgtttgtgtagTAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTGTGTTTTCGGACCCATATAGAGTTTCCACATTTAATCGTTGGACTTCACC

Basic information

species Arabidopsis thaliana
transcript AT1G49820.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G49820.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G464137_T03 (Zea mays), 3'ss of exon 2
------------------------------------------------------------gttcaaaaccctcacatctattttatttactagtcaatgt----tatcgtgttgcttgtagtgagtgtcttttgtgtttgtgtagTAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTGTGTTTTCGGACCCATATAGAGTTTCCACATTTAATCGTTGGACTTCACC
                                                            | |       | |    | ||     | |   |   |||     || |  |  |    | |  |  || | |  ||||  || |||  |  | |  | ||  || |||||| | ||  |  | ||||||||||||||||| |||||||||||  | ||||||| ||||||||| ||||| || ||
gtgagctgcttcactgctgtttgaattgcttgtcgacttggcaattggctcccagtcgctggtacgtgggcacgtggccatgcctgtaaaggggagatgcgcactaactggacgggatttgcaatggtgtgtgctgttgttgcagTTGCTAAGTACTCTGCGAACGTGGAGATGTGTAGGCTCACGGAGCAAGTTGTGTTCTCGGACCCATACCGTGTTTCCAAATTTAATCGGTGGACCTCGCC

upper sequence: AT1G49820.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 2
------------------gttcaaaaccctcacatctattttatttactagtcaatgttatcgtgttgc--ttgtagtgagtgtcttttgtgtttgtgtagTAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTGTGTTTTCGGACCCATATAGAGTTTCCACATTTAATCGTTGGACTTCACC
                    |    ||  | |      | |||   | |     || |||| ||||| |  ||| | ||| |   | |||  ||  || |||  ||||||||||||| ||||||||||||||| |  | || ||||| ||||| || || ||||| |||| ||||||   || ||||||||||||||| ||
ggttgaatgatagtctcttcttgtgactataatgaagttcttacaaatttaattat-ttatggtgttaccattggattgaattcatattggcttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGTTGTTTTCTCCGACCCTTATAAAGTTTCTCAATATAATCGTTGGACTTCCCC

upper sequence: AT1G49820.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA20G26580.1 (Glycine max), 3'ss of exon 2
---------------------gttcaaaaccctcacatctattttatttactagtcaatgttatcgtgttgcttgtagtgagtgtcttttgtgtttgtgtagTAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTGTGTTTTCGGACCCATATAGAGTTTCCACATTTAATCGTTGGACTTCACC
                       | |  |   ||  |   |||| |||  ||| |    |||| | ||  | ||| | ||| |   | |||  ||  || |||  ||||||||||||| ||||||||||||||| |  | || || || || || || || ||||| |||| ||||||   || ||||||||| ||||| ||
ctgatattctcttgttgtgactataaggaagttcttacacatttaattgtcta-ttggggttaccttgg-gattgaattgaattcatattggcttcatgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAACAGGTCGTTTTCTCTGACCCTTATAAAGTTTCTCAATATAATCGTTGTACTTCCCC

upper sequence: AT1G49820.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv03s0091g00080.t01 (Vitis vinifera), 3'ss of exon 2
-------------------gttcaaaaccctcacatctattttatttactagtcaatgttatcgtgttgcttgtagtgagtgtcttttgtg-tttgtgtagTAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTGTGTTTTCGGACCCATATAGAGTTTCCACATTTAATCGTTGGACTTCACC
                   || | | |   |  ||  | |  |  | |  |    ||  ||| |    | ||| |    ||     ||||| ||| || |||  | |||||||||||||||||||||||||| ||  | || |||||||||||||| || || ||||| | ||| ||    |  ||||| |||||||| ||
gagtaattactggtagaatgtacgagaaaattgcagtt-tgcttctgatgaagttattctattgacaagattgaatcatgttcaaattgtgctttatgcagTTGCTGAATTTTGTGGTAATGTGGAGTTATGTCGGCTCACTGAGCAAGTTGTGTTCTCTGATCCATACAAAGTATCTCAGTACAATCGGTGGACTTCTCC

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|116447257|gb|EG489849.1|EG489849
EST:     CTTCTTCACTTCTCTCCTCTATCACGATACCACAGAGCACAGAAGAGCAG                         TAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTG
genomic: CTTCTTCACTTCTCTCCTCTATCACGATACCACAGAGCACAGAAGAGCAGgttcaaaacc ... gtttgtgtagTAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTG
EST: gi|124731555|gb|EH822957.1|EH822957
EST:     CTTCTTCACTTCTCTCCTCTATCACGATACCACAGAGCACAGAAGAGCAG                         TAACCGAAATTTTAGTGGTAATGTGGAGTTATGCCGATTAACGG
genomic: CTTCTTCACTTCTCTCCTCTATCACGATACCACAGAGCACAGAAGAGCAGgttcaaaacc ... gtttgtgtagTAACCGAA-TTTT-GTGGTAATGTGGAGTTATGCCGATTAACGG
EST: gi|116447256|gb|EG489848.1|EG489848
EST:     CTTCTTCACTTCTCTCCTCTATCACGATACCACAGAGCACAGAAGAGCAG                         TAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTG
genomic: CTTCTTCACTTCTCTCCTCTATCACGATACCACAGAGCACAGAAGAGCAGgttcaaaacc ... gtttgtgtagTAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactagtcaatgttatcgtgttgcttgtagtgagtgtcttttgtgtttgtgtagTAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTGTGTTTTCGGACCCATATAGAGTTTCCACATTTAATCGTTGGACTTCACC
         aatgttat  TA-rich tract