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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGATCTCAAAGAGGGTCCATTAGAGCAATTCACCCATGAGATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgttgcattgttttataactttagtttaaatgcacctgccaaaagtgaacatgaatcattggtgcttccaatattacag

Basic information

species Glycine max
transcript GLYMA08G19660.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19660.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S431_4V6.1 (Physcomitrella patens), 5'ss of exon 5
GTGGATCTCAAAGAGGGTCCATTAGAGCAATTCACCCATGAGATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtac---------tctgttgcattgttttataactttagtttaaatgc-----acctgccaaaagtgaacatgaatcattggtgcttccaatattacag--
||||| || ||||| || |||||||| |||||||| ||||| ||||||||||||||  | ||||||||||||||||||||| |||||| ||| |           |||||    |   | || | |||  |  ||  ||     || |||   |  |  |        |  ||| | || |  || | |   
GTGGACCTTAAAGAAGGACCATTAGATCAATTCACTCATGACATGGAACCTTTTCTTCGCAAGCAAGGCATGCCTGTTCGGCTAAATAGAGgcatgttcttcttcctgttcttgtccgtaatcattttcctcaaagagctggatacttgctgtatcttgatgctggaaaccggt-cctctaggatgaaactg
















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|192301236|gb|FG990186.1|FG990186
EST:     GATGGAACCTTCTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTTGTTGTTTGGTGAGGAAGGAAAGCC
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTT-GTTGTTTG-TGAGGAAGGAAAGCC
EST: gi|192328848|gb|FK022592.1|FK022592
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|151393611|gb|EV263486.1|EV263486
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTCTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|24206192|gb|BU965445.1|BU965445
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|151393020|gb|EV262895.1|EV262895
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAAGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|5677852|gb|AI938982.1|AI938982
EST:     ATGGAACCTTATCTCAGGAAGCAATGCATGGCCTGTGCG-TTAAATAAAT                         GAGTTGTGGAGCTT
genomic: ATGGAACCTTTTCTCAGGAAGCAAGGCATG-CCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTT
EST: gi|192302607|gb|FG994873.1|FG994873
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|7147014|gb|AW508936.1|AW508936
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGGTTCGGATTTTGTTGTTTGTGAGGAAAGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|22932190|gb|BU549329.1|BU549329
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|58018160|gb|CX704902.1|CX704902
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|192302608|gb|FG994874.1|FG994874
EST:     GATGGAACCTTTTTTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|192301600|gb|FG994784.1|FG994784
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAAGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|14990628|gb|BI316301.1|BI316301
EST:     GATGGAACCTTTTCTCATGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAAGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|17153605|gb|BM143538.1|BM143538
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|192297638|gb|FG989931.1|FG989931
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|14126392|gb|BG790830.1|BG790830
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|151397245|gb|EV267118.1|EV267118
EST:     GATGGAACCTTCTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTCGTTGTTTGTGAGGAAGGAAAGCCTT
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTT
EST: gi|193532401|gb|FK489687.1|FK489687
EST:     GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAG                         GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAA
genomic: GATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgtt ... aatattacagGAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGATCTCAAAGAGGGTCCATTAGAGCAATTCACCCATGAGATGGAACCTTTTCTCAGGAAGCAAGGCATGCCTGTTCGGTTAAATAAAGgtactctgttgcattgttttataactttagtttaaatgcacctgccaaaagtgaacatgaatcattggtgcttccaatattacag

- - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG