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'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgcaagcaaaagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgtgctgtggcccacacc...

Basic information

species Glycine max
transcript GLYMA01G25940.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os03g26970.1 (Oryza sativa), 5'ss of exon 8
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgcaagcaaaagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatg-tgctgtggcccacacc
|| |||||||| || ||||| || || |||||||| || ||||||||||||||||| || ||||||||||| ||||||||||| ||||||||   |   ||| | |     |  |  | | |   |||   | |||  |   | |||  ||   | |  |    |  ||| ||||     | |  | 
GTTGATCCATCAGGGTCATACTTCTCCTGGAAAGCATCAGCTATGGGGAAAAATGTGTCAAATGCAAAGACATTTCTTGAGAAAAGgtaagcagattgacaaaacttacaattgatactagatactgttacatgtgg-tatcatttttcttccatttgatcataaacatggtgcttaattctatgct

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os02g42320.4 (Oryza sativa), 5'ss of exon 7
--------------GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgta---agcttttcatcaata----gtagttctgcaagcaa--------aagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgt-gctgtg-gcccacacc-------------------------------------
              || ||||| || || ||||| || || |||||||| || ||||||||||||||||| || ||||||||||| |||||||| || |||||   ||| |  ||  ||||     | || || ||  |          || |   |  ||| | ||   || ||  ||     | | | | | ||     | |||  | |  |||                                      
TATTATTTCTACAGGTTGATCCCTCAGGATCATACTTCTCCTGGAAAGCATCAGCTATGGGGAAAAATGTCTCCAATGCAAAGACATTTCTTGAAAAAAGgtacatagcataccactaatattgtattgtactacactctgttttcctcaatctgatcagaaataaagtggatttgtttacgaggatatcttctttccaaagttgtatgactgcacttgtactgttgttcaacctctttatgtcctcatttcag

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os02g42320.1 (Oryza sativa), 5'ss of exon 7
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgta---agcttttcatcaata----gtagttctgcaagcaa--------aagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgt-gctgtg-gcccacacc-------------------------------------
|| ||||| || || ||||| || || |||||||| || ||||||||||||||||| || ||||||||||| |||||||| || |||||   ||| |  ||  ||||     | || || ||  |          || |   |  ||| | ||   || ||  ||     | | | | | ||     | |||  | |  |||                                      
GTTGATCCCTCAGGATCATACTTCTCCTGGAAAGCATCAGCTATGGGGAAAAATGTCTCCAATGCAAAGACATTTCTTGAAAAAAGgtacatagcataccactaatattgtattgtactacactctgttttcctcaatctgatcagaaataaagtggatttgtttacgaggatatcttctttccaaagttgtatgactgcacttgtactgttgttcaacctctttatgtcctcatttcag

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G115948_T01 (Zea mays), 5'ss of exon 5
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgcaagcaaaagcatgtgtgaagtgaatcagaatttgtttttg-tgttgtgtccattatgtgctgtggcccacacc
|| ||||| || || ||||| || || ||||| || || || ||||| |||||||| || |||||||||||||||||||| ||||||||     |  ||  ||    ||| ||||    |         ||   ||| |    |  |  |  || || |       ||   | |  | |   | |  
GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAGgtacagcctcaatgtattaatgttgtgcacttgatctagacactgttttgagttgtgacatagtactgctgataatattctttcatccgattgtaaataa-

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 9
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgta-agcttttcatcaatagtagttctgcaagcaaaagcatgtgtgaagtgaatcagaatttgtttttg-tgttgtgtccattatgtgctgtggcccacacc
|| ||||| || || ||||| || || ||||| || || || ||||| |||||||| || |||||||||||||||||||| |||||||| ||| |      | || | ||| ||||    |         ||   ||| |    |     |  || || |       ||   | |  | |   | |  
GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAGgtacagcctcaatgtagtaat-gttgtgcacttgatctagacactgttttgagttgtgacacagtactgctgataatattctttcatccgattgtaaataa-

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G382240_T01 (Zea mays), 5'ss of exon 9
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgcaagcaaaagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgtgctgtggcccacacc
|| ||||| || || ||||| || || ||||| || || || ||||| |||||||| || ||||||||||| |||||||| ||||||||     |       ||||| |  ||    |     | | | |  ||                                                    
GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGG-AAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatctcatggtagtaatgttgtgcacttgcac-tatatacag----------------------------------------------------

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G382240_T02 (Zea mays), 5'ss of exon 7
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgca-agcaaaagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgtgctgtggcccacacc
|| ||||| || || ||||| || || ||||| || || || ||||| |||||||| || ||||||||||| |||||||| ||||||||     |       ||||| |  ||   |     |  || |    | |  |      |  ||| |    | ||  |  | ||    |    |   ||  
GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGG-AAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatctcatggtagtaatgttgtgcacttgcactatatacaga-tacactgttgtgagttgtgacatagtaccgctgataattttcttctatcatt

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G085243_T01 (Zea mays), 5'ss of exon 9
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgca-agcaaaagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgtgctgtggcccacacc
|| ||||| || || ||||| || || ||||| || || || ||||| |||||||| || ||||||||||| |||||||| ||||||||     |       ||||| |  ||   |     |  || |    | |  |      |  ||| |    | ||  |  | ||    |    |   ||  
GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatctcatggtagtaatgttgtgcacttgcactatatacaga-tacactgttgtgagttgtgacatagtaccgctgataattttcttctatcatt

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM5G850355_T06 (Zea mays), 5'ss of exon 2
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgcaagcaaaagc-atgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgtgctgtggcccacacc
|| ||||| || || ||||| || || ||||| || || || ||||| |||||||| || ||||||||||| |||||||| ||||||||     |       ||||| |  ||    |     | || |    | |  |      |  ||| |    | ||  |  | ||    |    |   ||  
GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatctcattgtagtaatgttgtgcacttgctctatatacaga-tacactgttgtgagttatgacatagtaccgctgataattttcttctgtcatt

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM5G850355_T08 (Zea mays), 5'ss of exon 8
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgca-agcaaaagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgtgctgtggcccacacc
|| ||||| || || ||||| || || ||||| || || || ||||| |||||||| || ||||||||||| |||||||| ||||||||     |       ||||| |  ||   |     |  || |    | |  |      |  ||| |    | ||  |  | ||    |    |   ||  
GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatctcattgtagtaatgttgtgcacttgcactatatacaga-tacactgctgtgagttgtgacatagtaccactgataattttcttctgtcatt

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: AT1G16470.1 (Arabidopsis thaliana), 5'ss of exon 9
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaa-gcttttcatcaatagtagttctgcaagcaaaagcatgt-gtgaagtgaatcagaatttgtttttgtgttgtgtccattatg-tgctgt-ggcccacacc--------------------------------------------------------------
||||||||||| || || ||||| || ||||||||||| || |||||||| || ||||| |||||||| || || |||||||| ||||||  || || |  | | || | | | |||  | |   |    ||  | ||| |  |||  | || || |  |      |||  | |  | | ||| |    |                                                              
GTGGATCCATCTGGCTCTTATTTCTCCTGGAAAGCTTCAGCCATGGGGAAGAACGTTTCTAATGCAAAAACCTTCCTTGAGAAAAGgtaatactgtttacaatttgttgatatccaaagatatataaccagtatactgattttgaaaattttcttttactactcaaatttcgataatataggctcctgtcataacaatatgaaaccactcttcgtcgctgacaaaccttaaccaattacgatttccttgcag

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 9
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctt--ttcatcaatagtagttctgcaagcaaaagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgtgctgtggcccacacc
||||||||||| || || ||||| || |||||||||||||| ||||| || ||||||||||||||||||||||||||||||||||||| |   |  || | || | || ||  ||     |  | | ||   ||||    |||   ||  | || || ||   ||                       
GTGGATCCATCTGGCTCTTATTTCTCATGGAAAGCTTCTGCAATGGGAAAGAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtgataataatttaccatttgtggtgatgagtttatgatcttg---gaagcatgtcat--ttcatcttagtctttgatcag---------------------

upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 8
lower sequence: Vv01s0011g01960.t01 (Vitis vinifera), 5'ss of exon 8
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgcaagcaaaagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgtgctgtggcccacacc------
||||||||||| ||||||||||| || |||||||| || || |||||||| ||||| || ||||||||||| |||||||||||||||||   |||  ||||  | | | |      |       |    |||  | || ||| |    | | | | ||||||    ||  |  ||   |    |        
GTGGATCCATCAGGTTCATATTTCTCATGGAAAGCCTCCGCAATGGGGAAGAATGTCTCAAATGCAAAGACATTTCTTGAGAAGAGgta---tttaaatcagaatttggttgctgtgtctttttaaa-atgatatcaagcagcagcc-tatctttattgtgtttgatactt-ttgcaacaacaattttttta

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|120495257|gb|EH223424.1|EH223424
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|208136336|gb|GD940136.1|GD940136
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|192309681|gb|FG999894.1|FG999894
EST:     GGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: GGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|208286744|gb|GE085318.1|GE085318
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|58014614|gb|CX701356.1|CX701356
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|192325446|gb|FK018387.1|FK018387
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|120494647|gb|EH222814.1|EH222814
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|18690708|gb|BM519556.1|BM519556
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|57575724|gb|CX548699.1|CX548699
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|8403449|gb|BE059083.1|BE059083
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|192316847|gb|FK010834.1|FK010834
EST:     TTTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|19348090|gb|BM892622.1|BM892622
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|15204528|gb|BI427296.1|BI427296
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGAT
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGAT
EST: gi|151406778|gb|EV276593.1|EV276593
EST:     TCTGCTATGGGGAAGAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGAC
EST: gi|24206299|gb|BU965552.1|BU965552
EST:     TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG                         GTACACAGATGATATGGAGCTT
genomic: TCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagctttt ... ccacttacagGTACACAGATGATATGGAGCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAGgtaagcttttcatcaatagtagttctgcaagcaaaagcatgtgtgaagtgaatcagaatttgtttttgtgttgtgtccattatgtgctgtggcccacacc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG