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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAGAAAAGCATGGTATAATTATTGAATTTTCTGATCCTGTCTATAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatgttcactattgaatattgttttacattttggaaatgacattagagtcaccaaattgagatgccacaaataaaagttgtcatgcgttacatc...

Basic information

species Glycine max
transcript GLYMA20G18290.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G18290.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0101g00100.t01 (Vitis vinifera), 5'ss of exon 4
ATAGAAAAGCATGGTATAATTATTGAATTTTCTGATCCTGTCTATAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatgttcactattgaatattgttttacattttggaaatgacattagagtcaccaaattgagatgccacaaataaaagttgtcatgcgttacatc
|| | ||||||||||||||||||||| ||| ||||||||| |||||| |||||||| ||||| |||||  |||| || ||||||||| |||||||| |  | |||||  |||    |||  |||||| |||    |  |  |        | ||   |   ||     | |    | |||   |  | |   | 
ATTGGAAAGCATGGTATAATTATTGAGTTTACTGATCCTGACTATAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttgttccatatcctttatacttttacttttctatacagcaaaccttaatagcatgctctcatctaggagagtggaattgctctttgctctctt
















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|192329677|gb|FK022943.1|FK022943
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAG                         GTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
EST: gi|24136395|gb|BU926905.1|BU926905
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAG                         GTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
EST: gi|10845842|gb|BF071193.1|BF071193
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGGCAATGAAA                         GTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGT
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGT
EST: gi|209702527|gb|BW667160.1|BW667160
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAG                         GTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
EST: gi|208031704|gb|GD831226.1|GD831226
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAG                         GTTGGACAAAAACAAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTAC
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACA-GAAGCCATTGATTCCTTGATACGTAAAGCAGGGTAC
EST: gi|209727621|gb|BW663781.1|BW663781
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAG                         GTTGGACAAAAACAGAAGCCATTGATTCCTTG
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACAGAAGCCATTGATTCCTTG
EST: gi|192324869|gb|FK015365.1|FK015365
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAG                         GTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
EST: gi|15285733|gb|BI469624.1|BI469624
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAG                         GTTGGACAAAA
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAA
EST: gi|27424259|gb|CA935779.1|CA935779
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAG                         GTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
EST: gi|14012066|gb|BG726997.1|BG726997
EST:     TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAG                         GTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
genomic: TAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatg ... ttggtttcagGTTGGACAAAAACAGAAGCCATTGATTCCTTGATACGTAAAGCAGGGTACA
EST: gi|209708643|gb|BW678820.1|BW678820
EST:     AACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAAG                         GT-GGACAAAAACAGAAGCCATTGATTCCTTGA
genomic: AACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAA-Ggtaacttatg ... ttggtttcagGTTGGACAAAAACAGAAGCCATTGATTCCTTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAGAAAAGCATGGTATAATTATTGAATTTTCTGATCCTGTCTATAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatgttcactattgaatattgttttacattttggaaatgacattagagtcaccaaattgagatgccacaaataaaagttgtcatgcgttacatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaaa