Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattgtgtgtggtgtgctggtgacattttctttttttatttgttaattttaaaactggtaaatttgttgagaagaaagggagccttgccacagta...

Basic information

species Glycine max
transcript GLYMA03G37170.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g15310.1 (Oryza sativa), 5'ss of exon 4
GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattgt----gtgtggtgtgctggtgac-attttctttt--tttatttgtta-attttaaaactggtaaatttgttgagaagaaagggagccttgccacagta
|| || ||||  |||||||||||||| ||||| ||||| || || || || |||||||| ||||| || ||||||||||| || ||| |     |||       || | || || | ||| |  |||  | |||  || || | ||  |||  ||          | |   ||||||         
GATGGTGATAAGTTTTGGAGGATGCCAGAATGTTACATCCGTGGGAACACCATCAAGTATCTTCGGGTTCCTGATGAGgtatggatttttaacatgttaaaccttgtttactatgtgcttgtggtttgctggttgtatgtttagacatgtatgttctccatctgcataatcagccttt--------

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 4
lower sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 5
GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattgtgtgtggtgtgctggtgacattttctttttttatttgttaattttaaaactggtaaatttgttgagaagaaagggagccttgccacagta----
|||||||||||||||||||||||||| ||||| || || || || || |||||||||||||||||||| || ||||||||   | || | |||| ||||   ||     | ||||  || || |   | ||||     || |    |   |  | |   | |  || | |||| |  |    
GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAGgtaatttttttttgtg-tgtgtgtgtatatatctcttgcttgatct---agttttttctttgttcccctctctctggaatgatgatgcttagccaaatcagata

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv14s0060g02240.t01 (Vitis vinifera), 5'ss of exon 4
GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattgtgtgtggtgtgctggtgacattttctttttttatttgttaattttaaaactg-gtaaatttgttgagaagaaagggagccttgccacagta
|| |||||||| |||||||| ||||| ||||||||||| || || |||||||| ||||| ||  |||| ||||| ||||| | | | || | |  |       | |  ||     | | |   | |||  || | |  |  |    |||||| | | |  |     |    || ||   
GATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAGgtatatttggtttttcattgatatctaagtttaaagctatattgctattatattcatatttatgcttctttgtt-ataggctatatttctaaaccccaagt

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv07s0005g00230.t01 (Vitis vinifera), 5'ss of exon 6
GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattgtgtgtggtgtgctggtgacattttctttttttatttgttaattttaaaactggtaaatttgttgagaagaaagggagccttgccacagta-
|| |||||||| |||||||| |||||||| |||||||| || || |||||||| || || |||||||| ||||||||||| ||| |    | |      |  ||   |  |   | | | |  | |  | |  |    || ||  ||  |||   ||           | | |   |  
GATGGAGATAGGTTTTGGAGAATGCCTGAGTGCTACATCCGTGGGAATACAATTAAATATCTTCGAGTTCCTGATGAGgtatgtctgaaatcttcctcacatgtttaagctaaatctatgacct-tacagtgcattcttgttacgttctttgcttagttgtcttttggtcctattttgt

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 4
lower sequence: PP1S36_327V6.2 (Physcomitrella patens), 5'ss of exon 3
GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtatt-gtgtgtggtgtgctgg-tgacattttctttttttatttgttaattttaaaactggtaaatttgttgagaagaaagggagccttgccacagta---------------------------------------------------
|| || ||  | || ||||||||||||||||||||||| ||||| ||||| || || ||  | || || |||||||||||  |||||   |  |    | || | |  |  |||   |  |  | ||  |||    | |||| ||    |  |   | ||||| | ||  ||   | |                                                     
GATGGTGACCGGTTCTGGAGGATGCCTGAATGCTACATTCGAGGAAATACTATAAAATATTTGCGGGTTCCTGATGAGgttagtatttacgattcaacttctagctagcggttttaatcctgttctgacaatcagtatactgttattcatactcttacgaaagcgtgcaatgtgcctgatttgttaatagtttctgaaagccatcatcattgctattgtttcctccttcag

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|298181980|gb|HO026155.1|HO026155
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|22541271|gb|BU091114.1|BU091114
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAA                         GTTATTGATAAAGTCCAAGAAGAAACCAAGAGCCGTGCAT
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|4306331|gb|AI443889.1|AI443889
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAAGAGC-GTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAA-GAGCCGTGCAG
EST: gi|298177576|gb|HO027243.1|HO027243
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|15285536|gb|BI469427.1|BI469427
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|20449577|gb|BQ253701.1|BQ253701
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|298188838|gb|HO035531.1|HO035531
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|298167205|gb|HO010644.1|HO010644
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|15287452|gb|BI471343.1|BI471343
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|20449634|gb|BQ253758.1|BQ253758
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|6227965|gb|AW156627.1|AW156627
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|298165378|gb|HO011427.1|HO011427
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|12773301|gb|BG238228.1|BG238228
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|298181583|gb|HO025758.1|HO025758
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|298169719|gb|HO021079.1|HO021079
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|298190031|gb|HO032152.1|HO032152
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|298180399|gb|HO025600.1|HO025600
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|298195412|gb|HO039243.1|HO039243
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|6724523|gb|AW308922.1|AW308922
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|208176841|gb|GD977690.1|GD977690
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
EST: gi|24206235|gb|BU965488.1|BU965488
EST:     AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG                         GTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG
genomic: AATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattg ... ttatttttagGTTATTGATAAAGTTCAAGAAGAAACCAAGAGCCGTGCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAGgtgtgtattgtgtgtggtgtgctggtgacattttctttttttatttgttaattttaaaactggtaaatttgttgagaagaaagggagccttgccacagta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaagaaa