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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATTCTTTACTCATCAGTTGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtaccaatgcttaaaattgttgtttctgatacttaagagaaaatgtttgtttccagccaaaatttcaactgtattaaaatttgaacttttgttctgagaag

Basic information

species Glycine max
transcript GLYMA01G37790.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G37790.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g47600.2 (Oryza sativa), 5'ss of exon 5
TATTCTTTACTCATCAGTTGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtaccaatgcttaaaattgttgtttctgatacttaagagaaaatgtttgtttccagccaaaatttcaactgtattaaaatttgaacttttgttctgagaag
| ||||||||||||| ||||| |||||||||||||||||||| || ||| | ||  ||||||| ||| |||| || |||||||| || || || |||||||||      || |    ||| || | || |  |||| ||||||| |           ||||  |||      |||     ||    || | | |||| |  
TGTTCTTTACTCATCTGTTGTTTACCCACACAACTATGGTTTCATTCCACGCACACTTTGTGAGGACGGTGACCCCATGGACGTCCTCGTCCTGATGCAGgta-----actgatggatgt-gtgtgtgttttttaaaagaaaatata----------caaaccttctctaacattgcttctt---tttctctcctgatag-

upper sequence: GLYMA01G37790.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G18230.1 (Arabidopsis thaliana), 5'ss of exon 5
TATTCTTTACTCATCAGTTGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtaccaatgcttaaaat-tgttgtttctgatacttaagagaaaatgtttgtttccagccaaaatttcaactgtattaaaatttgaacttttgttctgagaag
  |||| ||||||||  |||| ||||| |||||||| ||||| |||||  |||| || ||||||||||||||||| ||||| || ||||| || |||||||| |     ||       | ||   | | ||  | |  | ||| |   |||   ||| ||       ||| |  || | |  | || |  ||| | |     
CGTTCTCTACTCATCCATTGTGTACCCCCACAACTACGGTTTCATCCCTCGAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctctcgcctcatcttagctttcatgttcat-acaaacttgatgtaaacaggcagtgaaataacagacttgaga--taaaatactgtgcag-----

upper sequence: GLYMA01G37790.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0023g02050.t01 (Vitis vinifera), 5'ss of exon 4
TATTCTTTACTCATCAGTTGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtaccaatgcttaaaattgttgtttctgatacttaagagaaa--atgtttgtttccagccaaaatttcaactgtattaaaatttgaacttttgttctgagaag---
| ||||||||||||||||||| || ||||| ||||||||||| |||||  ||||||| ||||||||||| ||||||||||| || ||| ||||||||||||||       || | ||      ||   | | | | || | |  |  | | |||         | || ||   ||| ||||||      || |  ||     |   
TGTTCTTTACTCATCAGTTGTTTATCCACATAACTATGGTTTCATCCCTCGAACCATCTGTGAAGACAGCGATCCTATGGATGTCCTGATTCTAATGCAGgtagtgtcatttgacataccatcttaccacaatcatgatacattacatcttttttatttttctaattaaatcttataaaaattcatcaattcgccctctcgtgtag

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|151403411|gb|EV273221.1|EV273221
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATC
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtaccaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|151412819|gb|EV282631.1|EV282631
EST:     TATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: TATGGACGTGCTGGTTCTAATGCAGgtaccaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|8402595|gb|BE058229.1|BE058229
EST:     GGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GGACGTGCTGGTTCTAATGCAGgtaccaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|192330469|gb|FK021214.1|FK021214
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtaccaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|192330470|gb|FK021215.1|FK021215
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtaccaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|151412430|gb|EV282242.1|EV282242
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtaccaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATTCTTTACTCATCAGTTGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtaccaatgcttaaaattgttgtttctgatacttaagagaaaatgtttgtttccagccaaaatttcaactgtattaaaatttgaacttttgttctgagaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA