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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGCGACCAGTAGTGGAAACTGGATATGAAAACGTTTTACTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaaatgcttacggctctgatttttattgttagttatcacttggtagcaatcgaaaaccatgtcactggagctaggtttatagtttatgatgatgccagtggccttgaagctgcatctactttcaaataagtaaaatggatatttgacctgttgacttatgtcatagtttttgtgcca

Basic information

species Glycine max
transcript GLYMA18G46830.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G46830.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S137_263V6.1 (Physcomitrella patens), 5'ss of exon 3
GGTGCGACCAGTAGTGGAAACTGGATATGAAAACGTTTTACTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaaatgcttacggctctgatttttattgttagttatcact-tggtagcaatcgaaaaccatgtcactggagctaggtttat-agtttatgatgatgccagtggcct---tgaagctg-catctactttcaaataagtaaaatggatatttgacctgttgacttatgtca-tagtttttgtgcca
 ||||| ||||||||||| ||||||||||||||| |||| |||||| |  || |  | |||| ||     ||   | | ||||||||||||||  ||| |  |     |    |||    | | |  |||| |   | | |||      | |   ||| ||| |      |||   || || || |    | |   |   | |   |||  | |     |   ||||      | |  ||     |    | |  |  ||   | |  ||           
-GTGCGGCCAGTAGTGGAGACTGGATATGAAAACATTTTGCTTGTGCGGCTGCTTTTAGAGATCAAGGTCCCTCACGTGCGGAAGTCTTCGgtatgtagagag-----gaacttgaacgctgtag--agttctggatattgtactttctgcagttcatatcatttatatcaggagaattagcttgtctcaaggttggaaccttgcatgagacggatgaatgacttcactatgattatgtgtgctataatgcggccggtttgaatgaacag-----------
















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|209713411|gb|BW681466.1|BW681466
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|151406125|gb|EV275940.1|EV275940
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|4437055|gb|AI522920.1|AI522920
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|192315950|gb|FK008833.1|FK008833
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|151411748|gb|EV281559.1|EV281559
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|209703963|gb|BW667953.1|BW667953
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|33389737|gb|CA852944.1|CA852944
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCATC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|213587116|gb|DB959537.1|DB959537
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|192331284|gb|FK023781.1|FK023781
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|298185946|gb|HO031107.1|HO031107
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|298192058|gb|HO036140.1|HO036140
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|192301669|gb|FG997611.1|FG997611
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|6566253|gb|AW233934.1|AW233934
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|209727899|gb|BW663413.1|BW663413
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|298197195|gb|HO041938.1|HO041938
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|21887980|gb|BQ741193.1|BQ741193
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|151398479|gb|EV268350.1|EV268350
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|58017891|gb|CX704633.1|CX704633
EST:     TTGTGAGATTG-TGC-TGNAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: TTGTGAGATTGTTGCTTG-AGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
EST: gi|57575865|gb|CX548836.1|CX548836
EST:     CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTC                         GGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT
genomic: CTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaa ... ttttgtgccaGGTTGCAGAGGGGCTAACAGTTGAGGGTATATTGGAGAACTGGTCAAAGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGCGACCAGTAGTGGAAACTGGATATGAAAACGTTTTACTTGTGAGATTGTTGCTTGAGAGCAGAACACCAACCATCCGGAAGTCTTCggtgggtaaaatgcttacggctctgatttttattgttagttatcacttggtagcaatcgaaaaccatgtcactggagctaggtttatagtttatgatgatgccagtggccttgaagctgcatctactttcaaataagtaaaatggatatttgacctgttgacttatgtcatagtttttgtgcca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG