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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttcattctcttgcaacatatgcaccttaagatgcctcctctcccaacccttttatttatataatcgtgtgactgaatactcttatcttttttta...

Basic information

species Glycine max
transcript GLYMA19G17920.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G17920.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G27020.1 (Arabidopsis thaliana), 5'ss of exon 4
GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgt-ttacttcattctcttgcaacatatgcaccttaagatgcctcctctcccaa---cccttttatttatataatcgtgtgactgaatactcttatcttttttta
||||| || ||  | ||||||||||| ||||||||||||||  | || ||||||||||||   | |||||| |||| | | |  |  |    | | | |||      ||||||   |  |     ||   |  ||  | |  || |    |      |   |   || ||||  ||  
GCTGTTGCTGGGCTTGCAGCTGATGGGAGGCAAATTGTTGCGCGTGCTAAGTCTGAAGCACGAAGCTATGAGAGgtatcaatgaaaacatcagtagcttatat---ctaagatttattattatgaaagaactgttcaactcctaaagcttttctcaaggggatgtttctcttagtta-
















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|298166742|gb|HO010181.1|HO010181
EST:     GGTAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|151409523|gb|EV279331.1|EV279331
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|151406675|gb|EV276490.1|EV276490
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTTGCTGACCGTGTGGCTA
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAAC-TTGCTGACCGTGTGGCTA
EST: gi|151405011|gb|EV274825.1|EV274825
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|151411404|gb|EV281215.1|EV281215
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|192334682|gb|FK025887.1|FK025887
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTACTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|151409103|gb|EV278911.1|EV278911
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|192324735|gb|FK018771.1|FK018771
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCAGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|192325082|gb|FK017498.1|FK017498
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|26048077|gb|CA784674.1|CA784674
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|192325978|gb|FK016655.1|FK016655
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCAGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|298176424|gb|HO026659.1|HO026659
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|16344394|gb|BI969989.1|BI969989
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|7685409|gb|AW756057.1|AW756057
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|16344458|gb|BI970053.1|BI970053
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|254321256|gb|GR827705.1|GR827705
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|16347339|gb|BI972934.1|BI972934
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|20498037|gb|BQ272967.1|BQ272967
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|254321257|gb|GR827706.1|GR827706
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|26047788|gb|CA784463.1|CA784463
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
EST: gi|208110680|gb|GD913200.1|GD913200
EST:     GGCAGGCAAATTGTTGCTAGGGCTAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGT
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGT
EST: gi|6726863|gb|AW311282.1|AW311282
EST:     GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAG                         TGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG
genomic: GGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttca ... ttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAGTCTGAAGCAACTAACTATGACAGgtttacttcattctcttgcaacatatgcaccttaagatgcctcctctcccaacccttttatttatataatcgtgtgactgaatactcttatcttttttta

- - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctccc