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

GTTAACAACACTGATGCTGAAGGTAGACTTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgtatacagctatgcatttatttctttctatacctgtaatatccccataaatcatcaaaactctaggcctcccacccaaaagatttgcttagc...

Basic information

species Glycine max
transcript GLYMA02G36530.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G36530.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os12g24650.1 (Oryza sativa), 5'ss of exon 7
GTTAACAACACTGATGCTGAAGGTAGACTTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgta-taactgtatacagctatgcatttat-ttctttctatacctgtaatatccccataaatcatcaaaactctaggcctcccacccaaaagatttgcttagc---
||  ||||||||||||| ||||| || ||||| || || |||||| |||||||||| ||||| |  |||||||| |||||| | | |  ||   |  |     |  | |||| |  |||    |   |||    | ||    || |  |  |    |       |  | |||    | |    
GTGGACAACACTGATGCAGAAGGAAGGCTTACACTTGCTGATGCTTTGGTATATGCCTGTAAACTGGGTGTTGACAAGgtaatgagttaattttgaaagttgctcgtgttctattgatatgactgccatct--gtgaagttccatatttgaaaattt---gtataggacattgctattgttgg

upper sequence: GLYMA02G36530.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os02g55140.1 (Oryza sativa), 5'ss of exon 6
GTTAACAACACTGATGCTGAAGGTAGACTTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgtatacagctatgcatttatttctttctatacctgtaatatccccataaatcatcaaaactctaggcctcccacccaaaagatttgcttagc------
|| || ||||||||||| || || || ||||| || || |||||| |||| || |||||||| ||||||||||| ||||||      | ||  |       ||     || || |||    ||  |  |  ||   |  | ||  || |     |  | |   |||      |||||       
GTAAATAACACTGATGCGGAGGGAAGGCTTACACTTGCTGATGCTTTGGTGTACGCTTGTAATCAAGGTGTTGACAAGgtaatgacttttatggtgtcatgtt-----ctgtccatatgattaccaatctgatttttt-ttaatgctttgatgatttctctataaattaaaccttagtgcaaga

upper sequence: GLYMA02G36530.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G178958_T01 (Zea mays), 5'ss of exon 7
GTTAACAACACTGATGCTGAAGGTAGACTTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgtatacagctatgcatttatttctttctatacctgtaatatccccataaatcatcaaaac--tctaggcctcccacccaaaagatttgcttagc------
|| || |||||||| || ||||| || || || || || |||||| |||| |||||||| |||||||||||||||||||||       ||  ||||     |  |  | ||||||||| ||           |   |    ||      |     |        ||| |||    | | |      
GTAAATAACACTGACGCAGAAGGAAGGCTAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgta-------atgaagcttcatttggaagt-tttctatacatgctgccatttagtgtgtttctaatgtagccccactcatgtgggaaaatgatcaattcaccccctct

upper sequence: GLYMA02G36530.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G043893_T01 (Zea mays), 5'ss of exon 7
GTTAACAACACTGATGCTGAAGGTAGACTTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgtatacagctatgcatt-tatttctttctatacctgtaatatccccataaatcatcaaaactctaggcctccc---acccaaaagatttgcttagc-
||  | ||||| ||||| || || || ||||| ||||| || ||| |||| ||||||||||||||||||||||| ||||||    | || || |   ||     | | |  | | ||   | ||   |        ||    || |   |||||| |     |    |   ||| | |     
GTAGATAACACGGATGCGGAGGGGAGGCTTACACTGGCTGACGCTTTGGTCTATGCTTGTAACCAAGGTGTTGACAAGgtaaccatttagaccgtactgagcagtgtatactgcaatttttatagagtg-----ggatttgaaatatgataggccgctggaaatatgatgaattcgttctcta

upper sequence: GLYMA02G36530.1 (Glycine max), 5'ss of exon 7
lower sequence: AT4G30920.1 (Arabidopsis thaliana), 5'ss of exon 7
GTTAACAACACTGATGCTGAAGGTAGACTTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgtatacagctatgcatttatttctttctatacctgtaatatccccataaatcatcaaaactctaggcctcccacccaaaagatttgcttagc
|| |||||||| |||||||||||| |||| || || ||||||||| | || |||||||| ||||| ||||| || |||||||   ||| | ||   || | |  | || ||  || |    |  | |     |   |  ||  || |||   | |   |   | || ||||||     
GTCAACAACACCGATGCTGAAGGTCGACTAACACTTGCAGATGCTTTAGTTTATGCTTGCAACCAGGGTGTCGATAAGgtat---tgt-ttcaaagattcttcgacttattaatacattctttctgttggttt---ttctctcaagtctcaacttgtgaattacaatatttgcag---

upper sequence: GLYMA02G36530.1 (Glycine max), 5'ss of exon 7
lower sequence: AT2G24200.3 (Arabidopsis thaliana), 5'ss of exon 8
GTTAACAACACTGATGCTGAAGGTAGACTTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgtatacagctatgcatttatttctttctatacctgtaatatccccataaatcatcaaaactctaggcctcccacccaaaagatttgcttagc
|| |||||||| |||||||||||| | || || || ||||||||||| || ||||||||||||||||| || || |||||||     |  |   || |     |||      ||| |   |   | |  |  | ||  ||  |  || |  |     ||     ||   |     || 
GTCAACAACACAGATGCTGAAGGTCGTCTAACACTCGCAGATGCTCTAGTGTATGCTTGTAACCAAGGCGTCGACAAGgtat-----tgcattactttattgatatgagaagctaaaggagct-tgtttctgttaa--atttatcctttcagttaaacattgtcaaatatcttgcag-

upper sequence: GLYMA02G36530.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv11s0037g00180.t01 (Vitis vinifera), 5'ss of exon 7
GTTAACAACACTGATGCTGAAGGTAGACTTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgtata----cagctatgcatttatttctttctatacctgtaatatccccataaatcatcaaaactctaggcctcccacccaaaagatttgcttagc
|| || ||||| ||||| || || ||||| || || ||||| ||| ||||||||||||||||||||||||| || ||||||  ||  || |    |   ||| | | ||  | ||| | |  | |  | ||     |   |           | |  |  | |   |  ||| |   |    
GTCAATAACACAGATGCAGAGGGCAGACTCACACTTGCAGACGCTTTGGTATATGCTTGTAACCAAGGTGTAGAGAAGgtaccaccttaaaagagctaatattcctgtagatttttttttctcagagaaattgaattttgtttcgtttttcattgatcaactaagtactagactcttt----

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|254338404|gb|GR845654.1|GR845654
EST:     TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAG                         ATTATTGACTTGGCAACCTTGACTGGGGCTTGTGTTGTTGCTCTTGGACCC
genomic: TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgt ... gttctctcagATTATTGACTTGGCAACCTTGACTGGGGCTTGTGTTGTTGCTCTTGGACCC
EST: gi|151406149|gb|EV275964.1|EV275964
EST:     TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAG                         ATTATTGACTTGGCAACCTTGACTGGGGCTTGTGTTGTTGCTCTTGGACCC
genomic: TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgt ... gttctctcagATTATTGACTTGGCAACCTTGACTGGGGCTTGTGTTGTTGCTCTTGGACCC
EST: gi|192304831|gb|FG997041.1|FG997041
EST:     TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAG                         ATTATTGACTTGGCAACCTTGACTGGGGCTTGTGTTGTTGCTCTTGGACCC
genomic: TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgt ... gttctctcagATTATTGACTTGGCAACCTTGACTGGGGCTTGTGTTGTTGCTCTTGGACCC
EST: gi|207690297|gb|GD672914.1|GD672914
EST:     TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAG                         ATTATTGACTTGGCAACCTTGACTGGGGCTT
genomic: TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgt ... gttctctcagATTATTGACTTGGCAACCTTGACTGGGGCTT
EST: gi|21677539|gb|BQ629890.1|BQ629890
EST:     TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAG                         ATTATTGACTTGGCAACCTTGACTGGGGCTTGTGTTGTTGCTCTTTGTCCC
genomic: TTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgt ... gttctctcagATTATTGACTTGGCAACCTTGACTGGGGCTTGTGTTGTTGCTCTTGGACCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTAACAACACTGATGCTGAAGGTAGACTTACCCTGGCAGATGCTCTGGTATATGCTTGTAACCAAGGTGTTGAAAAGgtataactgtatacagctatgcatttatttctttctatacctgtaatatccccataaatcatcaaaactctaggcctcccacccaaaagatttgcttagc

- - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcccac