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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAAATTCCACTCATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaatctaatcttattcaatgttgagtgcatatccttatttttatataggaattaagttgaaagaaatatgagttttagtattgagatacaattgtgaagttaaatcattgttcagtgaatttcccttttttccccttatcatttttttatcaaaaaagttggcaaggttactcacaacataactcttgcag

Basic information

species Glycine max
transcript GLYMA18G02210.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G02210.3 (Glycine max), 5'ss of exon 9
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 5'ss of exon 9
GGAAAATTCCACTCATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaatctaatcttattcaatgttgagtgcatatccttatttttatataggaattaagttgaaagaaatatgagttttagtattgagatacaattgtgaagttaaatcattgttcagtgaatttcccttttttccccttatcatttttttatcaaaaaagttggcaaggttactcacaacataactcttgcag
|  || || || || |||||||||||||| ||||| ||||| || || |||||||| |||||||| ||| |      ||    ||||| | |     | |       |    ||||   | |    |       |||    | ||| |  |||| | | ||                                                                                                    
GACAAGTTTCATTCCTTCCACCCAGTTGCCACCATCCTCAGTTACCTCACCAAGGCCCCTCTGgtaagtctctctacatgcatttcaaagctttaaacttggtgggttccccatattctattc---tcccctttaatcgttgatttggacttgata-agaaccacac----------------------------------------------------------------------------------------------
















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|8670237|gb|BE191344.1|BE191344
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|207774146|gb|GD743268.1|GD743268
EST:     CATTCCACCCAGTTGCTACCATTCTTAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|192304598|gb|FG994918.1|FG994918
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GCTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|17021583|gb|BM092617.1|BM092617
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|120491712|gb|EH219879.1|EH219879
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|9900642|gb|BE609610.1|BE609610
EST:     TTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGGCTCCT-TG
genomic: TTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGG-CTCCTCTG
EST: gi|193529719|gb|FK483986.1|FK483986
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|7327134|gb|AW620996.1|AW620996
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|208231045|gb|GE033444.1|GE033444
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGC
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGC
EST: gi|6200949|gb|AW153049.1|AW153049
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|193430848|gb|FK393682.1|FK393682
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTG
EST: gi|12774084|gb|BG239011.1|BG239011
EST:     ATTCAACCAAGTTGCTACCATTCTTAGCTATCTGACCCAAG-CTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCTTTGTCAAAGCCA-CGTGCAAT
genomic: ATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACC-AAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGC-AGCGTGCAAT
EST: gi|16996086|gb|BM085458.1|BM085458
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|213592630|gb|DB979421.1|DB979421
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|5753617|gb|AI960904.1|AI960904
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|6070479|gb|AW099866.1|AW099866
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|6725970|gb|AW310369.1|AW310369
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|207779965|gb|GD753986.1|GD753986
EST:     CATTCCACCCAGTTGCTACCATTCTTAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|208315496|gb|GE116190.1|GE116190
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|208298017|gb|GE092364.1|GE092364
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGCGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|16342506|gb|BI968101.1|BI968101
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|209697827|gb|BW670083.1|BW670083
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|120530085|gb|EH258219.1|EH258219
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|4299061|gb|AI442850.1|AI442850
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|120491684|gb|EH219851.1|EH219851
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|208190804|gb|GD991424.1|GD991424
EST:     TACCATTCTCAGTCTTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: TACCATTCTCAG-C-TATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|58017143|gb|CX703885.1|CX703885
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|19937572|gb|BQ081344.1|BQ081344
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|120491615|gb|EH219782.1|EH219782
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|18724004|gb|BM523521.1|BM523521
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAAT
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAAT
EST: gi|298179536|gb|HO028007.1|HO028007
EST:     CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: CATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
EST: gi|193686704|gb|FK626097.1|FK626097
EST:     TTCCACCCAGTTGGCTACCCATTCTCAGCTATCTGACCAAGGCTCCTCTG                         GTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG
genomic: TTCCACCCAGTT-GCTA-CCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaa ... actcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAAATTCCACTCATTCCACCCAGTTGCTACCATTCTCAGCTATCTGACCAAGGCTCCTCTGgtgagtttaatctaatcttattcaatgttgagtgcatatccttatttttatataggaattaagttgaaagaaatatgagttttagtattgagatacaattgtgaagttaaatcattgttcagtgaatttcccttttttccccttatcatttttttatcaaaaaagttggcaaggttactcacaacataactcttgcag

- - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC