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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttacccaaattaaaaggttatgttctgtagagtatgtcaaatggctgatcactctttttctatttgcaataattgttctcctttttttgcacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACTGGCGCTGGTGATTCCTTTGTTGGTGCTCTATTAAGCAAGATTGTCGATG

Basic information

species Glycine max
transcript GLYMA11G13580.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G13580.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G31390.1 (Arabidopsis thaliana), 3'ss of exon 2
tttacccaaattaaaaggttatgttctgtagagtatgtcaaatggctgatcactctttttctatttgcaataat-tgttctcctttttttgca-------caaacc----agAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACTGGCGCTGGTGATTCCTTTGTTGGTGCTCTATTAAGCAAGATTGTCGATG
      | ||| | | |  ||| || | ||     |     | ||| | | ||||| |  |  |   ||| ||| ||||   ||| || |          ||||      ||| |||| | ||| | || ||  |||| ||||| | | | || |||||||| || ||||| ||||||||||| ||||||||  ||| | ||||||||||||
------cgaatcacatg-ctattttttttac----ttctttacggcag-ttactctgtgaccttccacaaaaatatgtttctcttcttatatgttcttaccaaattgtgtagACTTTCAAAGGAGCCGTTGACCCTTTCCATGTGAACGCTGTGGACACAACCGGAGCTGGAGATTCCTTTGTCGGTGCTCTTCTAAACCAGATTGTCGATG
















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|193712232|gb|FK652685.1|FK652685
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAAC
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAA-TTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAAC
EST: gi|208149297|gb|GD948533.1|GD948533
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTTCCATGGATCAGTGGAGGCTTTTCATGTCTAGCTACGGTCGACACA
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAA-TTTCCATGGATCAGTGGAGGCTTTTCATGTC-AGC-ACGGTCGACACA
EST: gi|193432996|gb|FK395704.1|FK395704
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATAGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|209697240|gb|BW673005.1|BW673005
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|207805836|gb|GD780315.1|GD780315
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGA
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGA
EST: gi|193415910|gb|FK381528.1|FK381528
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTC
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTC
EST: gi|208075815|gb|GD876872.1|GD876872
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGA
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGA
EST: gi|208336038|gb|GE134193.1|GE134193
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|207826453|gb|GD800712.1|GD800712
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTCCATGT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGT
EST: gi|208088291|gb|GD889459.1|GD889459
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGA
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGA
EST: gi|193718786|gb|FK649536.1|FK649536
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|193448151|gb|FK414164.1|FK414164
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGG
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGG
EST: gi|192331222|gb|FK023747.1|FK023747
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|208142183|gb|GD937029.1|GD937029
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGAT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGAT
EST: gi|209696695|gb|BW672901.1|BW672901
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|207788819|gb|GD761175.1|GD761175
EST:     AGTTGCTCTTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCG
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCG
EST: gi|207833134|gb|GD801811.1|GD801811
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|208046265|gb|GD845223.1|GD845223
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGAT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGAT
EST: gi|193601556|gb|FK553479.1|FK553479
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTT
EST: gi|11412250|gb|BF424261.1|BF424261
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|208153207|gb|GD950536.1|GD950536
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|207705063|gb|GD685612.1|GD685612
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGAT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGAT
EST: gi|192315687|gb|FK011155.1|FK011155
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|193535593|gb|FK492613.1|FK492613
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|192315688|gb|FK011156.1|FK011156
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|192331859|gb|FK026643.1|FK026643
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|208201252|gb|GE001720.1|GE001720
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|193332548|gb|FK301638.1|FK301638
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|193583063|gb|FK540125.1|FK540125
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|57574706|gb|CX547681.1|CX547681
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|208089188|gb|GD887037.1|GD887037
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|193648657|gb|FK600624.1|FK600624
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATACAGTGGAGGCTTTT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGAT-CAGTGGAGGCTTTT
EST: gi|208022820|gb|GD821334.1|GD821334
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|192333732|gb|FK025805.1|FK025805
EST:     TCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: TCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
EST: gi|193684337|gb|FK623517.1|FK623517
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGG
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGG
EST: gi|193725164|gb|FK661068.1|FK661068
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGA
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGA
EST: gi|193677587|gb|FK616189.1|FK616189
EST:     AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAG                         AATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT
genomic: AGTTGCTCCTTGTCACTCTTGGCGAACATGGCTCTAGATACTATACCAAGgtaaaaacac ... cacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgatcactctttttctatttgcaataattgttctcctttttttgcacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACTGGCGCTGGTGATTCCTTTGTTGGTGCTCTATTAAGCAAGATTGTCGATG
 ggctgat  putative branch site (score: 4)
                            ttgttctccttttttt  putative PPT
                tatttgcaataatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttacccaaattaaaaggttatgttctgtagagtatgtcaaatggctgatcactctttttctatttgcaataattgttctcctttttttgcacaaaccagAATTTCCATGGATCAGTGGAGGCTTTTCATGTCAGCACGGTCGACACAACTGGCGCTGGTGATTCCTTTGTTGGTGCTCTATTAAGCAAGATTGTCGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- -acccaaa
- - - - - - - - ggttatg
- - - - - - - - - - - -ttctgta
- - - - - - - - - - - - - - - - - - - - - tggctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttgcaa