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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGAAGGAATTGGAATTAACCGGATAACAAGGAATTTTGCAATGGCAAAACTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgcttactcttttgtaaaccatcctacttttcttatttttagcggttttttgttcttttgtgtcaaactggaagaaatgatgaaatgaagtgatgccagactgaatgtttcaccaactgttgttttggatgtatcag

Basic information

species Glycine max
transcript GLYMA14G01780.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G01780.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv19s0015g00380.t01 (Vitis vinifera), 5'ss of exon 6
CAGAAGGAATTGGAATTAACCGGATAACAAGGAATTTTGCAATGGCAAAACTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgcttactcttttgtaaaccatcctacttttcttatttttagcggttttttgttcttttgtgtcaaactgga-agaaatgatgaaatgaagtgatgccagactgaatgtttcaccaactgttgttttggatgtatcag
| ||||| |||||||| |||||| | ||   |||||||   |||||| ||||||||||||| ||    ||||| |||| |||||||||||||||||| |||||| | |  ||| |            ||  ||||   ||||| |  |   ||  ||| |  |||| | || || || | ||| ||  || | || |     | || |||                                 
CTGAAGGCATTGGAATCAACCGGTTGACCCAGAATTTTTTGATGGCAGAACTTGATGGGGCTTTCCACGGCACAGATATGGAAGCTGTTGAAATGTCCAGgttggtccaaactttg-----------ccccctttgtgtatttctt-catattgctgtgcggttgtctaaatctagagaaaaaagaaaaagtaaaatcccatcggaatgata-------------------------------
















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|193625707|gb|FK574797.1|FK574797
EST:     CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAG                         GTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
genomic: CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgctt ... gatgtatcagGTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
EST: gi|193436475|gb|FK404167.1|FK404167
EST:     CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAG                         GTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
genomic: CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgctt ... gatgtatcagGTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
EST: gi|58025088|gb|CX711829.1|CX711829
EST:     CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAG                         GTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
genomic: CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgctt ... gatgtatcagGTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
EST: gi|193419432|gb|FK383138.1|FK383138
EST:     CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAG                         GTTTCTTTTGAAGAACGAATGGTCTCTTCCTT
genomic: CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgctt ... gatgtatcagGTTTCTTTTGAAGAACGA-TGGTCTCTTCCTT
EST: gi|7795710|gb|AW781107.1|AW781107
EST:     CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAG                         GTTTCTTTTGAAGAACGATGGTCTCTTCCTTTGGAGTTCTTCTGCAATGAA
genomic: CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgctt ... gatgtatcagGTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
EST: gi|193409821|gb|FK375043.1|FK375043
EST:     CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAG                         GTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
genomic: CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgctt ... gatgtatcagGTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
EST: gi|193676695|gb|FK618307.1|FK618307
EST:     CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAG                         GTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA
genomic: CTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgctt ... gatgtatcagGTTTCTTTTGAAGAACGATGGTCTCTTCCTTGGGAGTTCTTCTGCAATGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGAAGGAATTGGAATTAACCGGATAACAAGGAATTTTGCAATGGCAAAACTTGATGGGGCCTTTAGAGGCACCGATAGGGAAGCTGTTGAAATGTCTAGgttgttgcttactcttttgtaaaccatcctacttttcttatttttagcggttttttgttcttttgtgtcaaactggaagaaatgatgaaatgaagtgatgccagactgaatgtttcaccaactgttgttttggatgtatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT