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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgtttttgtttcctatttatctatttacttgagagtctctatgtccatgtatcgcctttgacgattagtttcattgttcatag

Basic information

species Arabidopsis thaliana
transcript AT5G52920.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 5'ss of exon 2
TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgtttttgtttcctatttatctatttacttgagagtctctatgtccatgtatcgcctttgacgattagtttcattgttcatag--------------
|||||||| ||||| ||||| |||| |||||||| || || || ||||| ||||| ||||| || || ||| |||||||| ||||||||||| ||||| || || || | | | | | || | | || ||| | | | | | ||| | |||
ACATGGAGACCATGCATCACACCAGAAAGTTATTGACTTAGTAAAGGAATATAATGCTCAAACAAAGGATAACGTGATTGCTATTATGCTTGACACGAAGgtcagtattatttctttgagtttttgtactctaatgtatgggcggttcacagtaatcatcctaagaacctgctatatttgtgttagtcttacacagagta

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G30430.1 (Glycine max), 5'ss of exon 2
TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtt-tgtttttgtttcctatttatctatttac--ttgagagtctctatgtccatgtatcgcctttgacgattagtttcattgttcatag-------------------------------
||| ||||| |||||||| ||| |||| |||||||||||||||||||||| ||||| ||| | || |||||| ||||| || |||||||| |||||||| | || ||| | || | | || | || | | || ||| | | | | | | | || | | |||||
TCACGGAGACCATGCTTCTCATCAGAAAATTATTGATTTGGTTAAAGAATATAATGCTCAATCCAAGGACAACGTAATTGCAATTATGCTTGATACCAAGgtgataattaagttctttcttcaagttattgccttttaagattactttgttcgtatcatgtttctttggtcacagtttagttttcatgtcagctgataattcatttttctctcttttcag

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G37210.1 (Glycine max), 5'ss of exon 2
TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgt--ttgtttttgtttcctatttatctatttacttg-agagtctctatgtccatgtatcgcctttgacgattagtttcattgttcatag-------------------------------
||||||||| |||||||| ||| |||| |||||||||||||||||||||| ||||| ||| | || ||||| ||||| || |||||||| |||||||| | || | | | | | | |||| ||| | | || ||| ||| | | | | | || | | |||||
TCATGGAGACCATGCTTCTCATCAGAAAATTATTGATTTGGTTAAAGAATATAATGCTCAATCCAAGGACAATGTAATTGCAATTATGCTTGATACCAAGgtgataattatgttcttccttcaagttattagcttttaaggatactttgttcatatcacatttctttggtcacagtttagttttcatgtcagctgataattaatttttctctcttttcag

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 2
TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgtttt-tgtttcctatttatc-tatttac-ttgagagtctctatgtccatgtatcgcctttgacga-ttagtttcattgttcatag-------------------------------------------------------------------------------
||||||||||||||| || ||| ||||||||||||||||||| ||||| || ||||||||| | ||||| || ||||| ||||||||||| ||||||| ||||| | || | ||| || || |||| || || || | || | ||||| | || | ||||| |
TCATGGAGATCATGCATCTCATCAGAAGGTTATTGATTTGGTAAAAGAGTATAATGCACAATCCAAAGATAATGTCATTGCAATCATGCTTGATACCAAGgcaagttttctagttgttctttgtcctacttacattttatgttgctgcattcagttgcttaaattgaccagtttactaagttgttggaatgctcagataatacccttcatttagtggatcccttcttacttggcaattatcttgtttacttccttttctttgctaccag

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|116479876|gb|EG522468.1|EG522468
EST:     ACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAG                         GGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
genomic: ACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgttttt ... ttgttcatagGGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
EST: gi|86057237|gb|DR352994.1|DR352994
EST:     ACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAGG                         GGTCCGGAAGTTAGGAGTGGAGATTTACC
genomic: ACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgttttt ... ttgttcatagGGTCCGGAAGTTAGGAGTGGAGATTTACC
EST: gi|86057128|gb|DR352885.1|DR352885
EST:     AATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAG                         GGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
genomic: AATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgttttt ... ttgttcatagGGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
EST: gi|86057145|gb|DR352902.1|DR352902
EST:     AATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAG                         GGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
genomic: AATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgttttt ... ttgttcatagGGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT