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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatgttattagtttcataatcactagctagttacttaattagttttcttaattcctaatttgccctttgggtttgggcacatggaccttgctgg...

Basic information

species Glycine max
transcript GLYMA01G03720.6
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G03720.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv01s0127g00720.t01 (Vitis vinifera), 5'ss of exon 4
GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatgttattagtttcataatcactagctagttacttaattagttttcttaattcctaatt-tgc--cctttgggtttgggcacatggaccttgctgg
||| ||||||  | | || |  ||||||||||||||||||||||| ||||| ||  ||  ||||    ||||||    |   |  ||  ||  || ||  | | |      | |  |||  |||  ||||  |||    ||    ||     
GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatcctatttaaatcataacttttttttttttttttt-tttgtcatttcagcagtaagtcctgctgcctaagggtaagggtttctgttatttttc--
















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|120532712|gb|EH260845.1|EH260845
EST:     GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|120532659|gb|EH260792.1|EH260792
EST:     GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|192296129|gb|FG989489.1|FG989489
EST:     GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|6481602|gb|AW200873.1|AW200873
EST:     GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|16995716|gb|BM085088.1|BM085088
EST:     GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|298168878|gb|HO009808.1|HO009808
EST:     GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATGTTCTG
genomic: GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|6070604|gb|AW099991.1|AW099991
EST:     GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGACTCGAGAGTNTGTCCATCTCATATTCTG
genomic: GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGACTCGAGAGTTTGTCCATCTCATATTCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatgttattagtttcataatcactagctagttacttaattagttttcttaattcctaatttgccctttgggtttgggcacatggaccttgctgg

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