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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGGGGAGTCGCTTCAGAGGAAAATGGAGGAGAGAAAGACATTTGCTGTAGAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctccctggtaagcaactgtatgcatgttacaccacaattccaaatatgcgttttcttttgttcaggccttctaggtatggttttgattccagc...

Basic information

species Glycine max
transcript GLYMA17G38220.1
intron # 2
splice site 5'
intron type U2

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|120491971|gb|EH220138.1|EH220138
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|151404020|gb|EV273830.1|EV273830
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|209716259|gb|BW657562.1|BW657562
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|10846954|gb|BF069679.1|BF069679
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|15285088|gb|BI468979.1|BI468979
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|151395535|gb|EV265412.1|EV265412
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|22539788|gb|BU089631.1|BU089631
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|120533754|gb|EH261887.1|EH261887
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|209703879|gb|BW667920.1|BW667920
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|20075945|gb|BQ094728.1|BQ094728
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|6727137|gb|AW311491.1|AW311491
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGCCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|22524231|gb|BU083042.1|BU083042
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|22540334|gb|BU090177.1|BU090177
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|209714192|gb|BW679521.1|BW679521
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|151404614|gb|EV274428.1|EV274428
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|192297292|gb|FG990626.1|FG990626
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|209718155|gb|BW677426.1|BW677426
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
EST: gi|13481342|gb|BG510685.1|BG510685
EST:     GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAG                         CTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA
genomic: GAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctc ... taattttcagCTTTTGGTATGGAGAAGATCGGCCTCGTTGGCTTGGTCCTATTTCATATGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGGGGAGTCGCTTCAGAGGAAAATGGAGGAGAGAAAGACATTTGCTGTAGAAAACTCGTCTACATTCAAGGCCTTAGCCGGCAAGGCCCGAAAGGAGAGgtaatccctccctggtaagcaactgtatgcatgttacaccacaattccaaatatgcgttttcttttgttcaggccttctaggtatggttttgattccagc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctccc