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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGGCTCTTTTGTATATTGTACCTTCTGTAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttcattgcgtagtttttcgatttctctggtctcatatcaatgttaatcatcctttttatgcatctagttttctttcaatcattagttttactt...

Basic information

species Glycine max
transcript GLYMA06G08620.3
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08620.3 (Glycine max), 5'ss of exon 11
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 5'ss of exon 11
CCGGCTCTTTTGTATATTGTACCTTCTGTAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttt--tcattgcgtagtttttcgatttctctggtctcatatcaatgttaatcatcctttttatgcat--ctagttttctttcaatcattagttttactt
|| || ||| | |||||||||||  | || ||||| ||| |||||||||||||| |||||||||| || || |||| |||||||||  | | |      | ||| | ||   ||    | |||    | ||     ||| ||||||  ||  |||  ||||| ||  || || |||      
CCTGCACTTCTTTATATTGTACCAGCAGTTATTGGATTTATGGCTGCTCATTGCATATGGAATGGCGAAGTTAAACCGgtttgtttgataactttaccttattttgtttctccta--tttataatgttattcgcattccattttatatataactacatttctgtctttctttggttggtt--
















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|298185323|gb|HO030536.1|HO030536
EST:     TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAG                         TTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
genomic: TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
EST: gi|207682355|gb|GD665342.1|GD665342
EST:     TAATTGGATTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAG                         TTGTTGGAGTTCGATGA
genomic: TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGA
EST: gi|254349304|gb|GR860102.1|GR860102
EST:     TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAG                         TTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
genomic: TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
EST: gi|58024459|gb|CX711200.1|CX711200
EST:     TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAG                         TTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
genomic: TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
EST: gi|193723171|gb|FK661317.1|FK661317
EST:     TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAG                         TTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
genomic: TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
EST: gi|207834087|gb|GD805820.1|GD805820
EST:     CTCATTGCTTATGGAATGGTGTATGTCAAACAG                         TTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
genomic: CTCATTGCTTATGGAATGGTG-ATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
EST: gi|254349303|gb|GR860101.1|GR860101
EST:     TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAG                         TTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
genomic: TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
EST: gi|21887533|gb|BQ740746.1|BQ740746
EST:     TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAT                         TTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
genomic: TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
EST: gi|5342731|gb|AI795015.1|AI795015
EST:     TAATTGCGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAG                         TCGTTGGAGATCGATGAGTCAAAGACTGCCAATTCA
genomic: TAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCA
EST: gi|193648981|gb|FK599730.1|FK599730
EST:     AATTGGGTTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAG                         TTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT
genomic: AATTGGG-TTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttc ... tcaaacgcagTTGTTGGAGTTCGATGAGTCAAAGACTGCCAATTCACCTCAAGAGAGTGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCGGCTCTTTTGTATATTGTACCTTCTGTAATTGGGTTTTTGGCTGCTCATTGCTTATGGAATGGTGATGTCAAACAGgtttgttttcattgcgtagtttttcgatttctctggtctcatatcaatgttaatcatcctttttatgcatctagttttctttcaatcattagttttactt

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