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

gttaaaattttaagatttagtactatcaatatccttgcaactttataagaaaagtattcatcctttgcttgatttctgtctctcccttaaagaaaccaaaaggggaggaaataagtgcagaaagaaatgataaaagtacatttttcttatgcagGATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCATTATTCCCCCTGAACTTGGACCACCA

Basic information

species Glycine max
transcript GLYMA03G26680.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G26680.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0021g01850.t01 (Vitis vinifera), 3'ss of exon 10
gttaaaattttaagatttagtactatcaatatccttgcaactttataagaaaagtattcatcctttgcttgatttctgtctctcccttaaagaaaccaaaaggggaggaaataagtgcagaaagaaatgataaaagta-catttttcttatgcagGATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCATTATTCCCCCTGAACTTGGACCACCA
                                    | || | |  ||  | | ||||| || | |||||  ||| |   |     |  ||| |      |       | ||||  | | ||     |  ||   | | || |    || |||||||||||||||||||||| ||||||||| ||| ||||| ||||||||||| ||||| || || ||||||||||| |||
------------------------------------gtaaatatg-aattacaatattcgtc-tgtgctttctttgttaatagtaatagaagtattttccataacccaacataaa-gtaaaagcggttagtagctgaaacagtgaatttgtgcagGATTTGAGGAAGGAATTCGAGACATGAAACCTGGTGGAAAGAGAAGAATAATTATCCCTCCAGAACTTGGACCTCCA
















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|6482353|gb|AW201619.1|AW201619
EST:     GCAGGGTACTCCAGCCAAAATCCGTATGGGCACCAAGGGATTGGTTCCAG                         GATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA
genomic: GCAGGGTACTCCAGCCAAAATCCGTATGGGCACCAAGGGATTGGTTCCAGgttaaaattt ... tcttatgcagGATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA
EST: gi|193731536|gb|FK667462.1|FK667462
EST:     GCCAAAATCCGTATGGGCACCAAGGGATTGGTTCCAG                         GATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA
genomic: GCCAAAATCCGTATGGGCACCAAGGGATTGGTTCCAGgttaaaattt ... tcttatgcagGATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA
EST: gi|151393177|gb|EV263052.1|EV263052
EST:     GCAGGGTACTCCAGCCAAAATCCGTATGGGCACCAAGGGATTGGTTCCAG                         GATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA
genomic: GCAGGGTACTCCAGCCAAAATCCGTATGGGCACCAAGGGATTGGTTCCAGgttaaaattt ... tcttatgcagGATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA
EST: gi|213589871|gb|DB959454.1|DB959454
EST:     GCAGGGTACTCCAGCCAAAATCCGTATGGGCACCAAGGGATTGGTTCCAG                         GATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA
genomic: GCAGGGTACTCCAGCCAAAATCCGTATGGGCACCAAGGGATTGGTTCCAGgttaaaattt ... tcttatgcagGATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA
EST: gi|14011350|gb|BG726272.1|BG726272
EST:     CAGGGTACTCCAGCCAAAATCCGTATGGGCACCAAAGGGATTGGTTCCAG                         GATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA
genomic: CAGGGTACTCCAGCCAAAATCCGTATGGGCACCAA-GGGATTGGTTCCAGgttaaaattt ... tcttatgcagGATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggggaggaaataagtgcagaaagaaatgataaaagtacatttttcttatgcagGATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCATTATTCCCCCTGAACTTGGACCACCA
                                       catttttctt  CT-rich tract
                         aaatgataaaagtaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaaaattttaagatttagtactatcaatatccttgcaactttataagaaaagtattcatcctttgcttgatttctgtctctcccttaaagaaaccaaaaggggaggaaataagtgcagaaagaaatgataaaagtacatttttcttatgcagGATTTGAGGAAGGAATTAGAGACATGAGACCAGGTGGGAAGAGAAGAATCATTATTCCCCCTGAACTTGGACCACCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA