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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCCAGGGCAACAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtatttcgtgtattactttaattatttctggatgaattaaattagattaatgaatatgatgatatttggtataggaatttaatgtgtggatctctc...

Basic information

species Glycine max
transcript GLYMA05G34790.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G34790.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv01s0011g05370.t01 (Vitis vinifera), 5'ss of exon 6
GGATCCAGGGCAACAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtatt--tcgtgtattactttaattatttc---tggatgaattaaattagattaatgaatatga--tgatatttggtataggaatttaatgtgtggatctctc
||| ||| |||| |||| ||||||||||||||||||||||||||||| ||||| ||  | |||||    |      ||||| |   ||| || | |    |     || |   | || ||  |    ||||  | ||||| |     | |   |        |       
GGAACCAAGGCATCAGGAGCATTTATACTGACAGCAAGTCACAATCCAGGTGGTCCCAACGAGgtatacacaaactgtgtaatttcttagttttcttattttaggaaaatggttcagtttggtagtcatgaattaatattggcctctgtaggatgccaaacag-------
















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|254347113|gb|GR856783.1|GR856783
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAG                         GATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtattt ... catgtttcagGATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|151396774|gb|EV266647.1|EV266647
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAG                         GACTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtattt ... catgtttcagGATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|209696727|gb|BW672906.1|BW672906
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAG                         GATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtattt ... catgtttcagGATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|213611739|gb|DB958861.1|DB958861
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAG                         GATTTTGGAATTAAAT
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtattt ... catgtttcagGATTTTGGAATTAAAT
EST: gi|7146923|gb|AW508845.1|AW508845
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAG                         GATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtattt ... catgtttcagGATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|213605046|gb|DB956379.1|DB956379
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAG                         GATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAAGGG
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtattt ... catgtttcagGATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGA-GGG
EST: gi|15285957|gb|BI469848.1|BI469848
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAG                         GATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtattt ... catgtttcagGATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|6070595|gb|AW099982.1|AW099982
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAG                         GATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAG
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtattt ... catgtttcagGATTTTGGAATTAAATATAATATGGAAAACGGTGGACCTGCACCAG
EST: gi|7684820|gb|AW755468.1|AW755468
EST:     CAGGTGCATNTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAA                         GATTTTGGA-TTAAAT
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtattt ... catgtttcagGATTTTGGAATTAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATCCAGGGCAACAGGTGCATTTATACTGACAGCAAGTCACAATCCTGGTGGCCCTCATGAGgtgagtatttcgtgtattactttaattatttctggatgaattaaattagattaatgaatatgatgatatttggtataggaatttaatgtgtggatctctc

- - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - -  TGGTGG