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

GGACGTCCAAAAGGTGTAACACCTAAATACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttctaagctgctccattttgttttgttttggcattccttccacccccttttcgtttgcttgattttctgcttattcactgtgtcattttctcttgattacag

Basic information

species Glycine max
transcript GLYMA15G41550.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G41550.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os06g45710.1 (Oryza sativa), 5'ss of exon 3
GGACGTCCAAAAGGTGTAACACCTAAATACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttctaagc-tgctccattttgttttgttttggcattccttccacccccttttcgtttgcttgattttctgcttattcactgtgtcattttctcttgattacag
|| || |||||||||||||| || || ||||| |||||||||||||| ||  |  ||||| | ||||||||  |||| || |||  |  |||  |    ||| || | || || ||  ||||     ||  |    | ||   |   || || |  ||      | ||  ||  | || |  |   ||
GGTCGCCCAAAAGGTGTAACCCCGAAGTACAGCTTGAAGCCTCTTGTTCCGCGCTTGTCTGAGCTTCTTGGTGTTGATgtatgctataaaaggataaatcatatt-tattattctgcaattctgcttactacaaactggtagacc--atcttatatttccatgttttg--atgatgtccttgtcgtag

upper sequence: GLYMA15G41550.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G79550.1 (Arabidopsis thaliana), 5'ss of exon 2
GGACGTCCAAAAGGTGTAACACCTAAATACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttctaagctgctccat-tttgttttgttttggcattccttccacccccttttcgtttgcttgattttctgcttattcactgtgtcattttctcttgattacag
|| || ||||||||||| || ||||| ||||| || |||||||||||||| ||  ||||| ||||||||||  ||||||| ||         ||  || |   |||    ||||  | |      |           |  |    | | | | |   | || |  |                      
GGCCGCCCAAAAGGTGTTACTCCTAAGTACAGCTTAAAGCCTCTTGTGCCCAGATTGTCTGAACTTCTTGGTGTTGAGgtttgttcctcttcctcttctagacttgcaaggtttctgaacattagcttttaaaagaacactgttctcactctgtttgtgttaatag----------------------

upper sequence: GLYMA15G41550.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv19s0085g00370.t01 (Vitis vinifera), 5'ss of exon 2
GGACGTCCAAAAGGTGTAACACCTAAATACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttctaagctgctccattttgttttgttttggcattccttccacccccttttcgtttgcttgattttctgcttattcactgtgtcattttctcttgattacag
|| || ||||| ||||| |||||||| ||||| ||||| ||||||||||||||||||||| ||||||||||| ||||||| ||  |  |      ||    ||| | ||||||||  ||||   ||         | |  ||  || |  ||   |   | ||| | |  ||| |  ||  |     
GGGCGCCCAAAGGGTGTTACACCTAAGTACAGCTTGAAACCTCTTGTGCCAAGGCTGTCTGAACTTCTTGGAGTTGAGgtttgtttatt----ccctaatatttctgttgttttgttattcaaacctgatttggctggcatgaatg-tactcacttggatgacttttttgtttgcctttactag---

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|15815937|gb|BI788212.1|BI788212
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|17021828|gb|BM092862.1|BM092862
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|254319185|gb|GR830533.1|GR830533
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|298184361|gb|HO029574.1|HO029574
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|213590337|gb|DB963872.1|DB963872
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|213618073|gb|DB963706.1|DB963706
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|209701525|gb|BW667346.1|BW667346
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|254333427|gb|GR841289.1|GR841289
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|209726275|gb|BW659601.1|BW659601
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|213589807|gb|DB959418.1|DB959418
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGGAGGAAGTTGAAAAGTTGGTTAC
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGG-AGGAAGTTGAAAAGTTGGTTAC
EST: gi|298190988|gb|HO038467.1|HO038467
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|209717610|gb|BW679690.1|BW679690
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|209706842|gb|BW653134.1|BW653134
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|19347371|gb|BM892251.1|BM892251
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|254340232|gb|GR858357.1|GR858357
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|298192401|gb|HO036483.1|HO036483
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|254333389|gb|GR841251.1|GR841251
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|151408797|gb|EV278605.1|EV278605
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|5760694|gb|AI966057.1|AI966057
EST:     ACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|254343942|gb|GR857698.1|GR857698
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|120531954|gb|EH260087.1|EH260087
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|298176127|gb|HO015532.1|HO015532
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|19269452|gb|BM885708.1|BM885708
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|151410791|gb|EV280606.1|EV280606
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|192329504|gb|FK021874.1|FK021874
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCCCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|209709214|gb|BW657183.1|BW657183
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|213614766|gb|DB970771.1|DB970771
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGNGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|213606522|gb|DB971318.1|DB971318
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|209700685|gb|BW670461.1|BW670461
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|298195007|gb|HO043535.1|HO043535
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|209708596|gb|BW678773.1|BW678773
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|192307309|gb|FK001267.1|FK001267
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|209717628|gb|BW653990.1|BW653990
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
EST: gi|13789062|gb|BG651653.1|BG651653
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAG                         GTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttc ... ttgattacagGTTACGATGGCCAATGACTCTATTGGGGAGGAAGTTGAAAAGTTGGTTACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACGTCCAAAAGGTGTAACACCTAAATACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTTGGAATTGAGgtgtgccttctaagctgctccattttgttttgttttggcattccttccacccccttttcgtttgcttgattttctgcttattcactgtgtcattttctcttgattacag

- - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - TGAAGC