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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctcttttatgaatttgaaatttactttcttcgagttaacatcaagcattatgactattttgggctatgaaattttctaacacatactcttggttgtgcagAGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTATGGGATATTGAGATGGACACTGCTGCATTTGTTTTGTTCATTTAGAATCT

Basic information

species Glycine max
transcript GLYMA17G12640.2
intron # 2
splice site 3'
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|209717809|gb|BW668946.1|BW668946
EST:     GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAG                         AGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
genomic: GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAGgttaggctcc ... ggttgtgcagAGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
EST: gi|209717808|gb|BW668945.1|BW668945
EST:     GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAG                         AGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
genomic: GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAGgttaggctcc ... ggttgtgcagAGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
EST: gi|31561872|gb|CD487710.1|CD487710
EST:     GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAG                         AGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
genomic: GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAGgttaggctcc ... ggttgtgcagAGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
EST: gi|58024486|gb|CX711227.1|CX711227
EST:     GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAG                         AGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
genomic: GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAGgttaggctcc ... ggttgtgcagAGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
EST: gi|193319771|gb|FK285194.1|FK285194
EST:     GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAG                         AGTTCAACGCTGTT
genomic: GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAGgttaggctcc ... ggttgtgcagAGTTCAACGCTGTT
EST: gi|298172604|gb|HO019644.1|HO019644
EST:     GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAG                         AGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
genomic: GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAGgttaggctcc ... ggttgtgcagAGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
EST: gi|193336802|gb|FK304540.1|FK304540
EST:     GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAG                         AGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT
genomic: GACCCTATTGCAGTTAACCCCTGCGTTTGTCCTACTTGCGAAGGTAACAGgttaggctcc ... ggttgtgcagAGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattatgactattttgggctatgaaattttctaacacatactcttggttgtgcagAGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTATGGGATATTGAGATGGACACTGCTGCATTTGTTTTGTTCATTTAGAATCT
                            ttctaac  putative branch site (score: 1)
                   tatgaaattttctaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctcttttatgaatttgaaatttactttcttcgagttaacatcaagcattatgactattttgggctatgaaattttctaacacatactcttggttgtgcagAGTTCAACGCTGTTTGAACTGTCTTGGAAAAGGCTATGATTGACCTATTATGGGATATTGAGATGGACACTGCTGCATTTGTTTTGTTCATTTAGAATCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - -caagcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacatac