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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGAATCAACGACAAGCTGGCCAAGCAACAATTCCCTCAACCATTGAGGATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatctctccaccccctctacaaagtgtgaaatgatttcatattgatgagggaaaaatgaagtatatacttagtaatgctttaaggagtttattg...

Basic information

species Glycine max
transcript GLYMA14G36610.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G36610.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv13s0067g00180.t01 (Vitis vinifera), 5'ss of exon 6
TCGGAATCAACGACAAGCTGGCCAAGCAACAATTCCCTCAACCATTGAGGATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgt-----ttgtcatctctcca---ccccctctacaaagtgtgaaatgatttcatattgatgagggaaaaatgaagtatatacttagtaatgctttaaggagtttattg
 |   ||||||||||||||||||   | || ||||||||||| ||||| || ||| ||||||| || || || ||| ||||||| ||||| ||| | |||||     || |  || ||      |  ||| |  |  ||||   | ||   ||||   ||| ||   ||||| |  |  | ||   ||    || | | | | |    
ACAACATCAACGACAAGCTGGCCTCCCCACCATTCCCTCAACAATTGATGAAGAGATGGAGACTAACCCATTCATGCGGGTTGACCTACCAGAGCTTCAGgtaggcttttttgtccctttgaagcaacctttgtatggtgtttgaagagaacata---atggggatgaaatgcatcaagt-ctgcctaggcattcatgaaatgt----
















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|209714895|gb|BW682060.1|BW682060
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|254347199|gb|GR856869.1|GR856869
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         -AGAGGGTGGGCTGCAAGTCACCTGTTGA-GCATTAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAG
EST: gi|151407616|gb|EV277431.1|EV277431
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|254332850|gb|GR850100.1|GR850100
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|151406931|gb|EV276746.1|EV276746
EST:     ATGAGTTGGAGACCAATCTCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAG-AGAGATAAG-AAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|58017863|gb|CX704605.1|CX704605
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|192331092|gb|FK020312.1|FK020312
EST:     ATGAGCTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAG-AGAGATAAG-AAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|254333893|gb|GR848811.1|GR848811
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|298171750|gb|HO021342.1|HO021342
EST:     ATGAGTTGGAGACCAATCCCTCTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|209706271|gb|BW676286.1|BW676286
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|58020634|gb|CX707376.1|CX707376
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGTTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|58017298|gb|CX704040.1|CX704040
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|58024271|gb|CX711012.1|CX711012
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|254345800|gb|GR859447.1|GR859447
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|208037472|gb|GD833539.1|GD833539
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|151411907|gb|EV281718.1|EV281718
EST:     ATGAGCTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAG-AGAGATAAG-AAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|208268931|gb|GE069800.1|GE069800
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|58021215|gb|CX707957.1|CX707957
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|254322038|gb|GR837452.1|GR837452
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|151406677|gb|EV276492.1|EV276492
EST:     ATGAGTTGGAAACCGATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAG-AGAGATAAG-AAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|6665847|gb|AW277297.1|AW277297
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|254335322|gb|GR846819.1|GR846819
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
EST: gi|254335321|gb|GR846818.1|GR846818
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGG-TTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCT
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCT
EST: gi|254340015|gb|GR858140.1|GR858140
EST:     ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAG                         GAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG
genomic: ATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatc ... atatttccagGAGAGGGTGGGCTGCAAGTCACCTGTTGAAGCATTAGGAGAGATAAGGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGGAATCAACGACAAGCTGGCCAAGCAACAATTCCCTCAACCATTGAGGATGAGTTGGAGACCAATCCCTTTATGAGGGTTGATCTACCTGAGATCCAGgtttgtcatctctccaccccctctacaaagtgtgaaatgatttcatattgatgagggaaaaatgaagtatatacttagtaatgctttaaggagtttattg

- - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaaat