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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTATGCAGTGTGAAGCTTGTGGAGAAAATGCAACATTTACCCAGCAGCAATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTGgtatggtttcttttatacttgcctttcacctcctttgtatttagatgaaattgtttcaggtttagttgtttatatttttcatttgcactttgtactggat...

Basic information

species Glycine max
transcript GLYMA02G46300.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G46300.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv19s0090g01020.t01 (Vitis vinifera), 5'ss of exon 10
GTCTATGCAGTGTGAAGCTTGTGGAGAAAATGCAACATTTACCCAGCAGCAATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTGgtatggttt-cttttatacttgcctttcacctcc-----tttgtatttagatgaaattgtttcaggtttagttgtttatatttt--tcatttgcactttgtactggat
||     || ||||||| ||||||||||||||||||||| ||||| ||| |||| | ||| ||||| |||||||||||||||| | ||||  |      |||||  | | ||    ||| |  |||| |    |      |||||||| |||   |||| || || ||   |  |  |||      ||  ||| ||   |        
GTTGTCCCAATGTGAAGTTTGTGGAGAAAATGCAACATTCACCCAACAGAAATTTCAAGATTTTGACTATGAGAAGTTCACTCGGTCTCCACTATCCACGgtatcatctgctcccttacctctcttttattgtcaactgcttgtattttgatttgattgcttaagattctttcatcgataaaagaatctcttgtaccacg--------
















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|26059118|gb|CA802032.1|CA802032
EST:     AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTG                         CCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
genomic: AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTGgtatggtttc ... ttatatgcagCCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
EST: gi|193330487|gb|FK295335.1|FK295335
EST:     AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGCGTG                         CCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
genomic: AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTGgtatggtttc ... ttatatgcagCCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
EST: gi|254314122|gb|GR831751.1|GR831751
EST:     AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTG                         CCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
genomic: AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTGgtatggtttc ... ttatatgcagCCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
EST: gi|31311697|gb|CD396900.1|CD396900
EST:     AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTG                         CCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
genomic: AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTGgtatggtttc ... ttatatgcagCCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
EST: gi|207825644|gb|GD800967.1|GD800967
EST:     AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTG                         CCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
genomic: AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTGgtatggtttc ... ttatatgcagCCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
EST: gi|193593407|gb|FK547059.1|FK547059
EST:     AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTG                         CCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG
genomic: AATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTGgtatggtttc ... ttatatgcagCCTCCTTTGAAATTAAATCTACTTCCCAGTGAATCAAGAATCAGCAGCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTATGCAGTGTGAAGCTTGTGGAGAAAATGCAACATTTACCCAGCAGCAATTCCGAGAATTTGATTATGAGAAGTTCACTCAGACTCCCTTGCGTGTGgtatggtttcttttatacttgcctttcacctcctttgtatttagatgaaattgtttcaggtttagttgtttatatttttcatttgcactttgtactggat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacctcc