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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgagaaatgagttgtaattgacatttttccaatcaagagcctgccttaattcatttagagttctcttatcagGTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGAGGTTGAAAGAATTTATTTTGTGATTCTAGAGATGGCAC

Basic information

species Glycine max
transcript GLYMA02G10590.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G10590.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv13s0019g00010.t01 (Vitis vinifera), 3'ss of exon 14
--------------------------------------------------------------------gtaatgagaaatgagttgtaattgacatttttccaatcaagagcctgcctt-aattcatttagagttctcttatcagGTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGAGGTTGAAAGAATTTATTTTGTGATTCTAGAGATGGCAC
                                                                     |  |   | ||  ||| || || | | ||  | ||| || |     | || || | ||| ||   |    |  |||| | |  ||||| ||| |  |   |||  | |||| ||||| |||||| || ||||||||  ||||||||||||||||||||||| |||
gtgaaaagatgtgcttccttacattgctattttccaggcacctgatgttttcttattgcactgtatgatttttctaatatcggttatagttcataattccctaattaaaaaataacttttaaattattgagctgttctctgccagGCTACAGGAATATGAAATGAAAAATGACGGATCTACAAGACGTGGACCAGAAGTTGAAAGTGTTTATTTTGTGATTCTAGAGATGTCAC
















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|254323183|gb|GR835791.1|GR835791
EST:     CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAG                         GTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA
genomic: CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAGgtaatgagaa ... ctcttatcagGTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA
EST: gi|22524497|gb|BU083308.1|BU083308
EST:     CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAG                         GTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA
genomic: CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAGgtaatgagaa ... ctcttatcagGTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA
EST: gi|254323182|gb|GR835790.1|GR835790
EST:     CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAG                         GTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA
genomic: CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAGgtaatgagaa ... ctcttatcagGTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA
EST: gi|254320749|gb|GR827198.1|GR827198
EST:     CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAG                         GTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA
genomic: CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAGgtaatgagaa ... ctcttatcagGTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA
EST: gi|51335397|gb|CO979263.1|CO979263
EST:     CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAG                         GTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA
genomic: CGTGTTGATGCTCCAATTTATTTTGCAAACACAAGTTACATAAAGGACAGgtaatgagaa ... ctcttatcagGTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgacatttttccaatcaagagcctgccttaattcatttagagttctcttatcagGTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGAGGTTGAAAGAATTTATTTTGTGATTCTAGAGATGGCAC
                                           ttctcttatc  CT-rich tract
                            ttaattcatttaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatgagaaatgagttgtaattgacatttttccaatcaagagcctgccttaattcatttagagttctcttatcagGTTGCGTGAATACGAAGTTGATGTTGATTGTTCTAAAAGACATGGACCTGAGGTTGAAAGAATTTATTTTGTGATTCTAGAGATGGCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG