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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctgaagagcaactactcttgccagattttcttcccttttttttagattgctgattctaaaattgcacctccaactaattgtgtatgcatttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTCACTGTTAATGGGTGGGTGCAATCCTATGGTTCCCGTTGTGTGAAGCCAC

Basic information

species Glycine max
transcript GLYMA19G29180.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G29180.2 (Glycine max), 3'ss of exon 9
lower sequence: EFJ28889 (Selaginella moellendorffii), 3'ss of exon 8
tctgaagagcaactactcttgccagattttcttcccttttttttagatt--gctgattctaaaattgcacctccaactaattgtgtatgcatttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTCACTGTTAATGGGTGGGTGCAATCCTATGGTTCCCGTTGTGTGAAGCCAC
                                          |  ||||  || ||||| | || ||    || ||   |   |||   | |||  |  |||||||| || |||||||||||||||||||||||  ||  ||| ||||| ||||| || || || ||||| || ||||| || ||||| ||||| |||||||
-----------------------------------------gtaggatttggcagattccataactg---atctaatctacattgt---cctttttcgccagAGAAACGACATGGTTGAGTACTTCGGTGAGCAGCTGCAAGGTTTTGCTTTCACCGTCAACGGATGGGTACAGTCCTACGGATCCCGGTGTGTAAAGCCAC

upper sequence: GLYMA19G29180.2 (Glycine max), 3'ss of exon 9
lower sequence: EFJ05611 (Selaginella moellendorffii), 3'ss of exon 8
tctgaagagcaactactcttgccagattttcttcccttttttttagatt--gctgattctaaaattgcacctccaactaattgtgtatgcatttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTCACTGTTAATGGGTGGGTGCAATCCTATGGTTCCCGTTGTGTGAAGCCAC
                                          |  ||||  || ||||| | |  ||    || ||   |   |||   | |||  |  |||||||| || |||||||||||||||||||||||  ||  ||| ||||| ||||| || || || ||||| || ||||| || ||||| ||||| |||||||
-----------------------------------------gtaggatttggcagattccatagctg---atctaatctacattgt---cctttttcgccagAGAAACGACATGGTTGAGTACTTCGGTGAGCAGCTGCAAGGTTTTGCTTTCACCGTCAACGGATGGGTACAGTCCTACGGATCCCGGTGTGTAAAGCCAC
















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|8283431|gb|BE020992.1|BE020992
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|6071898|gb|AW101285.1|AW101285
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|10236584|gb|BE805472.1|BE805472
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATCGTCAGGCTGTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|192328366|gb|FK020077.1|FK020077
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGCTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|21256567|gb|BQ453455.1|BQ453455
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16276951|gb|BI942126.1|BI942126
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|207772143|gb|GD743548.1|GD743548
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16277987|gb|BI942667.1|BI942667
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16106130|gb|BI893870.1|BI893870
EST:     ACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCTTGTTTTAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTT
genomic: ACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAG-AACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTT
EST: gi|6069807|gb|AW099413.1|AW099413
EST:     AACTTCA-GAAGAGCTTGATATTGATGTTCTTGT-CATGGAGA-CCAGAG                         AGAA-TGATATGGT-GAGTACTTCG-TGAGCAAT-GTCAG-CTTT
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTT
EST: gi|16278622|gb|BI942999.1|BI942999
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16277989|gb|BI942668.1|BI942668
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16282151|gb|BI944864.1|BI944864
EST:     AAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16278722|gb|BI943056.1|BI943056
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16349493|gb|BI975088.1|BI975088
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16278501|gb|BI942937.1|BI942937
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|15589886|gb|BI674502.1|BI674502
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|19938578|gb|BQ081786.1|BQ081786
EST:     CTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: CTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16277874|gb|BI942608.1|BI942608
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16278558|gb|BI942967.1|BI942967
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16276953|gb|BI942127.1|BI942127
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|298194309|gb|HO040957.1|HO040957
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|151404730|gb|EV274544.1|EV274544
EST:     GATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: GATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16997293|gb|BM086665.1|BM086665
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|151406833|gb|EV276648.1|EV276648
EST:     CATGGAGAACCAGAG                         AGAAGTGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: CATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|15814429|gb|BI786704.1|BI786704
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16348451|gb|BI974046.1|BI974046
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|15288042|gb|BI471933.1|BI471933
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16278888|gb|BI943146.1|BI943146
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|19937752|gb|BQ081407.1|BQ081407
EST:     CTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: CTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16276931|gb|BI942116.1|BI942116
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|15589731|gb|BI674347.1|BI674347
EST:     GCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: GCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|15589791|gb|BI674407.1|BI674407
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|19938333|gb|BQ081671.1|BQ081671
EST:     CTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: CTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
EST: gi|16347739|gb|BI973334.1|BI973334
EST:     AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAG                         AGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC
genomic: AACTTCAAGAAGAGCTTGATATTGATGTTCTTGTTCATGGAGAACCAGAGgtcagctctc ... ttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattgctgattctaaaattgcacctccaactaattgtgtatgcatttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTCACTGTTAATGGGTGGGTGCAATCCTATGGTTCCCGTTGTGTGAAGCCAC
                           aactaat  putative branch site (score: 2)
                                            tttcact  putative PPT
        attctaaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctgaagagcaactactcttgccagattttcttcccttttttttagattgctgattctaaaattgcacctccaactaattgtgtatgcatttcactgcagAGAAATGATATGGTTGAGTACTTCGGTGAGCAATTGTCAGGCTTTGCCTTCACTGTTAATGGGTGGGTGCAATCCTATGGTTCCCGTTGTGTGAAGCCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC