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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAGAAAAGCATGGTATAATTATTGAATTTTCTGATCCTGTCTATAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatgttcactattgaatattgttttacattttggaaatgacatcatcagagtcaccaatttgagatgccacaaataaaagttgtcatgcattac...

Basic information

species Glycine max
transcript GLYMA10G24340.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G24340.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0101g00100.t01 (Vitis vinifera), 5'ss of exon 4
ATAGAAAAGCATGGTATAATTATTGAATTTTCTGATCCTGTCTATAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatgttcactattgaatattgttttacattt---tggaaatgacatcatcagagt-caccaatttgagatgccacaaataaaagttgtcatgcattac
|| | ||||||||||||||||||||| ||| ||||||||| |||||| |||||| | ||||| |||||  |||| || ||||| ||| |||||||| |  | |||||  |||    |||  |||||| |||   |  |    || | |  ||  | | |  || |  ||      || |     |||   |       
ATTGGAAAGCATGGTATAATTATTGAGTTTACTGATCCTGACTATAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttgttccatatcctttatacttttacttttctatacagcaaaccttaatagcatgctctcatctaggagagtggaattgctctttgctctctt----
















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|192303251|gb|FG995587.1|FG995587
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|209721129|gb|BW659167.1|BW659167
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|298194018|gb|HO040666.1|HO040666
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|192302476|gb|FG996254.1|FG996254
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|151397948|gb|EV267821.1|EV267821
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|58017309|gb|CX704051.1|CX704051
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|192319095|gb|FK010631.1|FK010631
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAA
EST: gi|11274924|gb|BF325249.1|BF325249
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|192313351|gb|FK005123.1|FK005123
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|151395355|gb|EV265226.1|EV265226
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|192294004|gb|FG987173.1|FG987173
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|209721128|gb|BW659166.1|BW659166
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|163927119|gb|EH038550.1|EH038550
EST:     TAACACAAGGTGTGGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|151395434|gb|EV265311.1|EV265311
EST:     AACACAAGGTGTAGTGCTACATACCTGCCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: AACACAAGGTGTAGTGCTACATACCTGCC-TGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|151398285|gb|EV267869.1|EV267869
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
EST: gi|17519784|gb|BM188826.1|BM188826
EST:     AACACAAGGTGTAGTGCTACATACCTGCCTGAAATGTGC-GCCAATGAAG                         GTTGGACAAAAACCGAAGCC
genomic: AACACAAGGTGTAGTGCTACATACCTGCCTGAAGTG-GCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCC
EST: gi|15000051|gb|BI320865.1|BI320865
EST:     TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAG                         GTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACCGAAGCCGTTGATTCTTTGATACGTAAAGCAGGGTACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAGAAAAGCATGGTATAATTATTGAATTTTCTGATCCTGTCTATAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatgttcactattgaatattgttttacattttggaaatgacatcatcagagtcaccaatttgagatgccacaaataaaagttgtcatgcattac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaaa