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'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATACTTTAAGGGCCCTGAACTTCTAGTTGATTTACAAGACTATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaattatagctataggctacaacttactggttatatgtgacatacccttggcgttatttaatatgaagtctaattttgaatctacatgtacaaaatcgtgtaattctgggttatgatcattttacttaatgcag

Basic information

species Glycine max
transcript GLYMA17G17790.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g10940.1 (Oryza sativa), 5'ss of exon 5
ATACTTTAAGGGCCCTGAACTTCTAGTTGATTTACAAGACTATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaattatagctataggctacaacttactggttatatgtgacatacccttggcgttatttaatatgaagtctaattttgaatctacatgtacaaaatcgtgtaattctgggttatgatcattttacttaatgcag
|||||| || || |||||| | || ||||| || |||   ||||||||||| |||||||||||||| |||||||| |||||||||||||||||| |  |     |    |  || ||  ||     |||     | ||  || |||| ||| ||  | | || |          |  | | | || |||       | |  |  | | |  | | | |  || ||||||
ATACTTCAAAGGGCCTGAATTGCTGGTTGACTTCCAAAGTTATGACTACTCTTTAGACATGTGGAGCCTTGGCTGTATGTTTGCTGGAATGgtgtgtttgccctcctatgattataaaataac--ctat---caaaattgccatggccttacttc-tgtaaatt----------acttgcgtatagaaagatagcaactgttatgctttatttactgtttttgatgcag

upper sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 5
ATACTTTAAGGGCCCTGAACTTCTAGTTGATTTACAAGACTATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaattatagctataggctacaacttactggttatatgtgacatacccttggcgttatttaatatgaagtctaattttgaatctacatgtacaaaatcgtgtaattctgggttatgatcattttacttaatgcag
|||||||||||| || |||||||| |||||||| ||||| ||||| || || || || |||||||| ||||| ||||||||||| |||||||||||| |||   |||  |   |       || |    || |||    |   | | |  |||||   |    | |  | || | | || || ||  |  | || | | || |   |||  |  | ||| ||| || ||
ATACTTTAAGGGGCCAGAACTTCTTGTTGATTTGCAAGATTATGATTATTCTTTGGATATGTGGAGCCTTGGTTGCATGTTTGCGGGAATGgtgagatttactactactgttgat------cttgaatcatttgaagggctgattgtgccatttacatt----ttttgtatttatttta-at-tatcattttgttttactcag---tatacttctattattta-tgtag

upper sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 5
ATACTTTAAGGGCCCTGAACTTCTAGTTGATTTACAAGACTATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaattatagctataggctacaacttactggttatatgtgacatacccttggcgttatttaatatgaagtctaattttgaatctacatgtacaaaatcgtgtaattctgggttatgatcattttacttaatgcag
|||||||||||| ||||||||||| |||||||| |||||||||||||| || || || |||||||| || || || |||||||| |||||||| | | ||| ||    ||         |  |  || | | | |||||         ||| || | ||| ||| |   ||   ||| | |  |  ||     |  | | ||   |   | |  |||| |  |  |   
ATACTTTAAGGGGCCTGAACTTCTTGTTGATTTGCAAGACTATGACTATTCTTTGGATATGTGGAGCCTAGGTTGTATGTTTGCGGGAATGgtaacagttacagtggcagttgg-----tgttaattttcttttacata---------ttacttgaaatgcagtttgtctt---atcaataaatgtaa--ctttcaactactcaatggaggtttttttcccaacag---

upper sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S230_93V6.1 (Physcomitrella patens), 5'ss of exon 5
ATACTTTAAGGGCCCTGAACTTCTAGTTGATTTACAAGACTATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaattatagctataggctacaacttactggttatatgtgacatacccttggcgttatttaatatgaagtctaattttgaatct-acatgtacaaaatcgtgtaattctgggttatgatcattttacttaatgcag
 |||||||||||||| ||  | || || ||| | |||||||| || || || || |||||||||||| | || |||||||||||||||||||| || | | ||  | ||   |   | ||  ||  | ||  |  |  |  |      |    ||||       |   ||   || || ||| |     | | || ||||| | |                         
GTACTTTAAGGGCCCAGAGTTACTTGTCGATCTTCAAGACTACGATTATTCTTTGGACATGTGGAGTTTAGGATGCATGTTTGCTGGAATGgtaaggaatgta-ttctatattttgaatt-ttgcatgtacattcctgaagcccattatcccataatgaaccagcaggttgcaaacctgacaggctaccatttgtttaattgtag-------------------------

upper sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ20478 (Selaginella moellendorffii), 5'ss of exon 5
ATACTTTAAGGGCCCTGAACTTCTAGTTGATTTACAAGACTATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaattatagctataggctacaacttactggttatatgtgacatacccttggcgttatttaatatgaagtctaattttgaatctacatgtacaaaatcgtgtaattctgggttatgatcattttacttaatgcag
|||||| || || || || || || || ||  | || ||||| || |||||  | ||||||||||| || ||||||||||| ||||||||||||||  || |  ||      |   |||| ||          |    ||                                                                                         
ATACTTCAAAGGTCCGGAGCTGCTTGTGGACCTGCAGGACTACGATTACTCTCTCGACATGTGGAGCCTAGGCTGCATGTTCGCTGGAATGgtgagtcttttgtctgatcattcgtacttgctaacgccccaagcttcacag---------------------------------------------------------------------------------------

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|15285633|gb|BI469524.1|BI469524
EST:     ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATG                         ATATTTCGCAAGGAACCNNNNNNNNATGGTCACGACCACCATGATCAGCTT
genomic: ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaatta ... cttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTT
EST: gi|10238106|gb|BE806994.1|BE806994
EST:     ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATG                         ATATTTCGCAAGGAACCNNNNNNN-ATGGTCACGACAACCATGATCAGCTT
genomic: ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaatta ... cttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTT
EST: gi|193642120|gb|FK587164.1|FK587164
EST:     ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATG                         ATATTTCGCAAGGAACCTTTCTTTTATGGTCACG
genomic: ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaatta ... cttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACG
EST: gi|10238225|gb|BE807113.1|BE807113
EST:     ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATG                         ATATTTCGCAAGGAACCNNNNNNN-ATGGTCACGACAACCATGATCAGCTT
genomic: ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaatta ... cttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTT
EST: gi|16345458|gb|BI971053.1|BI971053
EST:     ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATG                         ATATTTCGCAAGGAACCNNNNNNNNATGGTCACGACAACCATGATCAGCTT
genomic: ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaatta ... cttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTT
EST: gi|15000106|gb|BI320920.1|BI320920
EST:     ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATG                         ATATTTCGCAAGGAACCTTTCTTTTATGGTCACGACAACCATGACCAGCTT
genomic: ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaatta ... cttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTT
EST: gi|16283183|gb|BI945415.1|BI945415
EST:     ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATG                         ATATTTCGCAAGGAACCTTTCTTTTATGGTCACGACAACCATGACCAGCTT
genomic: ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaatta ... cttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTT
EST: gi|151412099|gb|EV281911.1|EV281911
EST:     ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATG                         ATATTTCGCAAGGAACCNNNNNNNNATGGTCACGACAACCATGATCAGCTT
genomic: ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaatta ... cttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTT
EST: gi|58018593|gb|CX705335.1|CX705335
EST:     ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATG                         ATATTTCGCAAGGAACCNNNNNNNNATGGTCACGACAACCATGATCAGCTT
genomic: ATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaatta ... cttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATACTTTAAGGGCCCTGAACTTCTAGTTGATTTACAAGACTATGACTACTCATTAGACATGTGGAGTCTTGGCTGCATGTTTGCTGGAATGgtgagaattatagctataggctacaacttactggttatatgtgacatacccttggcgttatttaatatgaagtctaattttgaatctacatgtacaaaatcgtgtaattctgggttatgatcattttacttaatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA