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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTTTATGAAGCACTAATGAGGCAAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgtctattgtatcttttgaacaccggttacaaacttggggatgttattcaaatttctgatatttatgttttgctgcttatcag

Basic information

species Glycine max
transcript GLYMA11G12260.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 14
GCTCTTTATGAAGCACTAATGAGGCAAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgtctattgtatcttttgaacaccggttacaaacttggggatgttattcaaatttctgata--tttatgttttgct--gcttatcag------
|| ||  ||||||| ||| ||||||| || ||  ||||||||||||| || ||||| ||| |||||| ||| ||||||||||      || ||    | |        ||  ||   |        |    | | | ||  ||  |  ||||||||    |||||          
GCCCTGCATGAAGCTCTATTGAGGCAGGAGGAATTGCTTGCTTACATAGACAGTCAGGAAGAAGCTAAGTTTCGGgtaagttgagtagttttacacataggggtgaacttctaattctttcagctctcaaaagactcctcctaggtcaatgttttgtgaagcttacattgcataa
















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|209719530|gb|BW651008.1|BW651008
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
EST: gi|209713243|gb|BW681782.1|BW681782
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
EST: gi|193392641|gb|FK358800.1|FK358800
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
EST: gi|214004554|gb|DB985333.1|DB985333
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
EST: gi|193315770|gb|FK281850.1|FK281850
EST:     GCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
genomic: GCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
EST: gi|58015266|gb|CX702008.1|CX702008
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
EST: gi|58019538|gb|CX706280.1|CX706280
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
EST: gi|208125799|gb|GD925939.1|GD925939
EST:     AAGAAGAGCTGCTTGCTTACATTGATTGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGATAGAAAGGGACTCTGGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCTTTATGAAGCACTAATGAGGCAAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGGgtaagtttgtctattgtatcttttgaacaccggttacaaacttggggatgttattcaaatttctgatatttatgttttgctgcttatcag

- - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA