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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgactttagatatttttcaaactgctcgctaaaccaaaatgactgtttttcctgttaaccctgttggtttgctgtctcaatctcattttttttcggttttgcatgcacttgttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAACAGCTAAGCGATTCATCAATGACACCATCAGGAATGATTTCCATAGAAAA

Basic information

species Glycine max
transcript GLYMA05G04620.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G04620.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g01700.1 (Oryza sativa), 3'ss of exon 6
gtttgactttagatatttttcaaactgctcgctaaaccaaaatgactgtttttcctgttaaccctgttggtttgctgtctcaatctcattttttttcggttttgcatgcacttgttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAACAGCTAAGCGATTCATCAATGACACCATCAGGAATGATTTCCATAGAAAA
                ||| || || ||||      |   | |   || ||     | |||   | || |    ||   | || || |||| | | |  ||||         | |||| |  ||||||||||||||||| || || ||||||||| | ||||| || ||||| ||| | || || |||||||| ||||| ||||| | |||||||||  | || 
---------------gtttacacacagctcatcgtgctgtattacatgcttc----gctaa---tattagcacacttgatgaa-cttatttctatcctatttt---------ttttttctgcagGTGGGATGATGATGTTGTATTCAAGAACCAGGCTCGTGGAGAGACCAAGACACCGAAACGTTTCATCAACGACACTATCAGAAGTGATTTCCACCGTAAG

upper sequence: GLYMA05G04620.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G13200.1 (Arabidopsis thaliana), 3'ss of exon 6
gtttgactttagatatttttcaaactgctcgctaaaccaaaatgactgtttttcctgttaaccctgttggtttgctgtctcaatctcattttttttcggttttgcatgc-acttgttttgttt-agGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAACAGCTAAGCGATTCATCAATGACACCATCAGGAATGATTTCCATAGAAAA
                          | | ||        ||    ||||| | | || || | ||  || ||    | | |||    ||       | |  || |    ||| || |  ||| ||||||||||||||||| || || || |||||| | ||||||||||  ||| |  ||||||| ||||||||||| || ||||||||||| ||||| ||||||
--------------------------gttagcagcttttgaaatcttgtttcttc-gtgaatcttg--ggatta---tattaatt--gttggaagcagatactgaaaattactcgtctcttttcagGTGGGATGATGATGTTGTATTCAAAAACCAGGCACGTGGTGAAATGAAAGCTCCTAAGCGCTTCATCAATGATACAATCAGGAATGACTTCCACAGAAAA

upper sequence: GLYMA05G04620.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv19s0015g00980.t01 (Vitis vinifera), 3'ss of exon 6
gtttg-actttagatatttttcaaactgctcgctaaaccaaaatgactgtt-tttcctgttaaccctgttggtttgctgtctcaatctcattttttttcggttttgcatgcacttgttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAACAGCTAAGCGATTCATCAATGACACCATCAGGAATGATTTCCATAGAAAA
|||||     |  | ||    |   |      ||     | |  || | |  |||  || | |  ||| |    | |||||   ||  || |        |||||  ||||| |||||| ||| |||||||||||||||||||| |||||||||||| ||||||||||| | || ||  | ||||| || ||||||||||| ||||| ||||| || || || || 
gtttgtggcctgaagatccaacttcccctctactcgggtagatagattttagtttattgatgagtctggtatggtcctgtcctgattccaat--------gttttctatgca-ttgtttggttcagGTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGACTCCCAAGCGCTTTATCAATGACACAATCAGAAATGACTTTCACAGGAAG

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|5760396|gb|AI965687.1|AI965687
EST:     GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAG                         GTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC
genomic: GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAGgtttgacttt ... ttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC
EST: gi|214006164|gb|DB986599.1|DB986599
EST:     GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAG                         GTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC
genomic: GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAGgtttgacttt ... ttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC
EST: gi|8282419|gb|BE020043.1|BE020043
EST:     GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAG                         GTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC
genomic: GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAGgtttgacttt ... ttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC
EST: gi|15285299|gb|BI469190.1|BI469190
EST:     GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAG                         GTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC
genomic: GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAGgtttgacttt ... ttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC
EST: gi|16345012|gb|BI970607.1|BI970607
EST:     GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAG                         GTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC
genomic: GGAAACCCACTGCTAAATAATCCAACAGCATCTTTCAATGTGAAAAGAAGgtttgacttt ... ttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgctgtctcaatctcattttttttcggttttgcatgcacttgttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAACAGCTAAGCGATTCATCAATGACACCATCAGGAATGATTTCCATAGAAAA
                                         cttgtttt  CT-rich tract
            aatctcatttttttt  TA-rich tract