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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCTTTACAAATCTATCTGATATATGGGCTAAAGAAATTGACTTATACTCAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcattgatgaatttgccttgtataattcctctttctaacaaatagtgagggtaagtctcaattcactaattccattagaaatttgcaagggaatgttttttcaaatgctgctcttgtgagctgtcatattttaaagtagacatgaatggaagtatacctcatcctaataatctcatatttcag

Basic information

species Glycine max
transcript GLYMA14G26690.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G26690.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv18s0001g15090.t01 (Vitis vinifera), 5'ss of exon 5
AACCTTTACAAATCTATCTGATATATGGGCTAAAGAAATTGACTTATACTCAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcattgatgaatttgccttgtataattcctctt-tctaacaaatagtgagggtaagtctcaatt-cactaattccattagaaatttgcaagggaatgttttttcaaatgctgctcttgtgagctgtcatattttaaagtagacatgaatggaagtatacctcatcctaataatctcatatttcag
||| ||||||||||||||||| ||||||||||||||||||||| | |||||||||||||||||||||||||||||||| ||||| ||||||||||||||||||  |  || |   | |||| |||   ||||  |||  | ||    |    |||  | |     |||  | || ||   ||     |    || | | |                                                                                          
AACATTTACAAATCTATCTGACATATGGGCTAAAGAAATTGACCTGTACTCAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattttagatacttgcattgagaaatttttctcatttattttaccaagagcatgaaaggaaatggctcttatcagatgcagcacaaacacgagta------------------------------------------------------------------------------------------
















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|193488390|gb|FK456213.1|FK456213
EST:     ATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: ATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|193686899|gb|FK632522.1|FK632522
EST:     ATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: ATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|58017830|gb|CX704572.1|CX704572
EST:     CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|11413897|gb|BF425908.1|BF425908
EST:     CAACATATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAA                         GAAAGTGAAAGGGTTGTCAGTCTAAA-GGAAGGAATAGACTTTGCTAGGGA
genomic: CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAG-CAAAAAGGAAGGAATAGACTTTGCTAGGGA
EST: gi|58018302|gb|CX705044.1|CX705044
EST:     CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|51336316|gb|CO980182.1|CO980182
EST:     CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|58024481|gb|CX711222.1|CX711222
EST:     CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|192325663|gb|FK019519.1|FK019519
EST:     CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAA                         GAAAGTGAAAGGGTTGTCAGCAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAA
EST: gi|192294546|gb|FG986395.1|FG986395
EST:     CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACCTTTACAAATCTATCTGATATATGGGCTAAAGAAATTGACTTATACTCAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcattgatgaatttgccttgtataattcctctttctaacaaatagtgagggtaagtctcaattcactaattccattagaaatttgcaagggaatgttttttcaaatgctgctcttgtgagctgtcatattttaaagtagacatgaatggaagtatacctcatcctaataatctcatatttcag

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