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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTTCTAGGATAAAGTGGAATTTCACCAAGTTTTTGGTTGACAAGGAAGGGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctctctctatttctctccatggagcttatgtgagattatgttcattccatttggattttgacgtctcagccttgaacaatgccaaatcctgtc...

Basic information

species Glycine max
transcript GLYMA03G30800.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G30800.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv07s0104g00320.t01 (Vitis vinifera), 5'ss of exon 5
GGGTTCTAGGATAAAGTGGAATTTCACCAAGTTTTTGGTTGACAAGGAAGGGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatc-tctctctatttctctccatggagcttatgtgagattatgttcattccat-ttggattttgacgtct--cagccttgaacaatgccaaatcctgtc----------------------
 || |||||||| || |||||||||||||||||| | ||||| |||||||| | |||||||   || |||||  |||| ||  | || ||  ||||||| ||||  || |||||||||   | | ||||       ||||   |  || |  |    | ||||    |||  | |     | ||  | ||| |  | | || |                       
TGGATCTAGGATCAAATGGAATTTCACCAAGTTTCTAGTTGATAAGGAAGGAACTGTCCTCGCCCGCTATGGCCCAACAACTGCCCCATTGACCATTGAGgtactgtcctctctctatacatattcatgtga---gtgtgttgtggtggtggtggggtgttggccactgatttttattgtcatttcaaaatacttacttcttttctttttctttcttaaaatgcag
















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|298192383|gb|HO036465.1|HO036465
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGGA                         AATGACATCAAGAGAGC
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGC
EST: gi|213611742|gb|DB958864.1|DB958864
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAA                         AATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
EST: gi|298165676|gb|HO008647.1|HO008647
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAA                         AATGACATCAAG
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAG
EST: gi|16345172|gb|BI970767.1|BI970767
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCCCCGTTTTCCATTGAA                         AATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
EST: gi|298194623|gb|HO043095.1|HO043095
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAA                         AATGACATCAAGAGAGCATTGGG
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGCATTGGG
EST: gi|58023037|gb|CX709778.1|CX709778
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAA                         AATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
EST: gi|8282815|gb|BE020376.1|BE020376
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAA                         AATGACATCAAGAGAGCATTG
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGCATTG
EST: gi|298178511|gb|HO024246.1|HO024246
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAA                         AATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAA-CTCTACAATCACTT
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
EST: gi|298181386|gb|HO022825.1|HO022825
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAA                         AATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
EST: gi|23734566|gb|BU765519.1|BU765519
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAA                         AATGACATCAAGAGAGCATTG
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGCATTG
EST: gi|57574515|gb|CX547490.1|CX547490
EST:     GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAA                         AATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT
genomic: GGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctc ... gcctttacagAATGACATCAAGAGAGCATTGGGGGAGGCTTGAAAAACTCTACAATCACTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGTTCTAGGATAAAGTGGAATTTCACCAAGTTTTTGGTTGACAAGGAAGGGAATGTCCTCCGGCGTTATGGTTCAACCACCTCACCGTTTTCCATTGAAgtacaatctctctctatttctctccatggagcttatgtgagattatgttcattccatttggattttgacgtctcagccttgaacaatgccaaatcctgtc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctctcc