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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcattaaggacatgcggttcttttgttcatcattaagaggaagtttctttcatggaattctgtgttactaatttgtttgcttcttgtcgctgaag

Basic information

species Glycine max
transcript GLYMA03G00920.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G00920.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G17770.1 (Arabidopsis thaliana), 5'ss of exon 5
GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcattaaggacatgcggttcttttgttcatcattaagaggaagtttctttcatgga-attctgtgttactaatttgtttgcttcttgtcgctgaag
||  | |||||||| ||||| ||  || ||||||| ||||| |||||||||||||| || || ||||| || ||||||||||||||||       ||||  |  | |  | |   |  | |||   | || | | |  |  |     | | || || | ||||                   
GGTAGGTTCAAGTATCAACCAGGTCAGTTTAGGGCATTTGGAATGCTTGCTGGAGGTTCAGGCATCACTCCCATGTTCCAAgtatgtct---gatacatttgcgtttgatatcgtttttgaagccaatgtatatgttttaaacgcgttatatttcttaattgtgaag---------------

upper sequence: GLYMA03G00920.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0056g01150.t01 (Vitis vinifera), 5'ss of exon 5
GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcattaaggacatgcggt-tcttttgttcat-cattaagaggaagtttctttcatgg---aattctgtgttactaatttgttt-gcttcttgtcgctgaag----------------------------------
|| ||||||| ||| |||  |||| | |||||||| |||||||||||||||||||| |||||||| || ||||||||||||||| ||  || || |  ||   | | ||| || ||| | || |     |||   |  | ||    |||| ||   || ||  ||   | |  | | |  | | | |                                  
GGGCGTTTCAGGTATCAAGTTGGCCAAGTTAGGGCATTTGGGATGCTTGCTGGAGGTTCTGGAATTACACCAATGTTCCAAgtaagtatttgagaaattgttttatatttggtacatgcttttaataagagtgcttgacctgtttcaattttgaactagtatctttcatagagtttaggtgataatgcgtagtggttgttccttttctgcccacaattcag
















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|192301598|gb|FG994782.1|FG994782
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|213617616|gb|DB969328.1|DB969328
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATNAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|209728695|gb|BW655402.1|BW655402
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|208315309|gb|GE113133.1|GE113133
EST:     GGTCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GG-CTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|151407227|gb|EV277042.1|EV277042
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|151394787|gb|EV264658.1|EV264658
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACACCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|13251953|gb|BG362856.1|BG362856
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|58021619|gb|CX708360.1|CX708360
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|298183643|gb|HO028856.1|HO028856
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|193364463|gb|FK333504.1|FK333504
EST:     CCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: CCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|151401464|gb|EV271278.1|EV271278
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAA-CCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|298184687|gb|HO029900.1|HO029900
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|298174935|gb|HO014852.1|HO014852
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATT
EST: gi|193434756|gb|FK403736.1|FK403736
EST:     CCAATGTTCCAA                         GTTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCT
genomic: CCAATGTTCCAAgtatgtcatt ... gtcgctgaagG-TTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCT
EST: gi|151403993|gb|EV273803.1|EV273803
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|12688305|gb|BG154641.1|BG154641
EST:     GGGCTTTTGGGAT-CTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|37995436|gb|CF807025.1|CF807025
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|18690778|gb|BM519626.1|BM519626
EST:     GGGCTTTTGGGATGCTTGCTGGAAGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|207830162|gb|GD804570.1|GD804570
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCGCCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
EST: gi|151399348|gb|EV269219.1|EV269219
EST:     GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAA                         GTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT
genomic: GGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcatt ... gtcgctgaagGTTGCCAGAGCTATATTAGAAAACCCTAATGACAGGACCAAAGTACATCTT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCTGGAGGGTCTGGAATCACCCCAATGTTCCAAgtatgtcattaaggacatgcggttcttttgttcatcattaagaggaagtttctttcatggaattctgtgttactaatttgtttgcttcttgtcgctgaag

- - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG