Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGAATATAAGCACATGACACCTGCTGCTGCACTGGAATATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaaatcatttttgtgtgtccccttccttctacaaggctactgattcaatgcagctactgtagtacttttttttggtaattatttctttcctcggcatttggattttttaattgttgcttgtgttgtaagcag

Basic information

species Glycine max
transcript GLYMA08G03600.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G03600.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv11s0016g02890.t01 (Vitis vinifera), 5'ss of exon 6
GTTGAATATAAGCACATGACACCTGCTGCTGCACTGGAATATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaaatcatttttgtgtgtccccttccttctacaaggctactgattcaatgcagctactgtagtacttttttttggtaattatttctttcctcggcatttggattttttaattgttgcttgtgttgtaagcag
||||| |||||||||||||||||||||||||| |||||||||||||| ||| |||||||  | |||||| |||| || |||||||||||||||  | ||       ||  | | |    |   || |     | | ||  || ||| ||  | ||    || ||| |||||  ||            | ||      | || | ||| |                    
GTTGAGTATAAGCACATGACACCTGCTGCTGCCCTGGAATATGTTCGTTCTAGAAGACCACGTGTGCTATTAGCTCCCTCACAGTGGAAGgta--agcagtaaggcttcatttattttgtatttttt-----ggtgct--tttaatacaattgct----taatttattttgtaaaacggaaaacctgtagg------gtttctgtaagt--------------------
















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|193704417|gb|FK645679.1|FK645679
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTATGACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
EST: gi|193433345|gb|FK395311.1|FK395311
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTTGCCATACTCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTT-GCCATACTCCCC
EST: gi|193533066|gb|FK493670.1|FK493670
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
EST: gi|193333104|gb|FK299954.1|FK299954
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTACAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTT-CAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
EST: gi|207825425|gb|GD800538.1|GD800538
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
EST: gi|208024143|gb|GD824207.1|GD824207
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTGTAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
EST: gi|193345414|gb|FK309199.1|FK309199
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCACCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
EST: gi|192295656|gb|FG990510.1|FG990510
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
EST: gi|193578968|gb|FK535820.1|FK535820
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTACAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTT-CAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
EST: gi|207832678|gb|GD803494.1|GD803494
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACT
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACT
EST: gi|207819140|gb|GD793274.1|GD793274
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCA
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCA
EST: gi|19453452|gb|BM954862.1|BM954862
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
EST: gi|207684113|gb|GD667502.1|GD667502
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTACAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTT-CAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
EST: gi|193521731|gb|FK479504.1|FK479504
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTACAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTT-CAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
EST: gi|10254074|gb|BE821840.1|BE821840
EST:     ATGTTCGGNCTCGAAGANNTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
EST: gi|208056897|gb|GD854674.1|GD854674
EST:     TTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTACAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
genomic: TTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTT-CAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCC
EST: gi|207824934|gb|GD796828.1|GD796828
EST:     ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAG                         GCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC
genomic: ATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaa ... ttgtaagcagGCTGTTCAAAACTATAACAAGCGAAGGCCTTCTCCTTTGCCATACTCCCCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGAATATAAGCACATGACACCTGCTGCTGCACTGGAATATGTTCGGTCTCGAAGACCTAGAGTGCTACTAGCACCATCACAGTGGAAGgtataaccaaatcatttttgtgtgtccccttccttctacaaggctactgattcaatgcagctactgtagtacttttttttggtaattatttctttcctcggcatttggattttttaattgttgcttgtgttgtaagcag

- - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG