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'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTTCCTTATGGAAATTCTGTTTTCTTCAATGTTCGCAAGATTGATGATCCTATTGGACTCTTACCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGGgtatgactaaacaaaaaaataactagttaaactaaacattatatagtttactattacaattattaaaaaatgaactgtgcttttaattgtgttttttcttgatcaattggctatag

Basic information

species Glycine max
transcript GLYMA16G21340.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G21340.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 9
ACTTCCTTATGGAAATTCTGTTTTCTTCAATGTTCGCAAGATTGATGATCCTATTGGACTCTTACCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGGgtatgactaaacaaaaaaataactagttaaactaaacattatatagtttactattacaattattaaaaaatgaactgtgcttttaattgtgttttttcttgatcaattggctatag
 ||||| ||||| || || |||||||||| ||| || |||||||||||||| || ||||| ||||||||  | || ||| ||||||| || ||| ||||||| |||           ||  ||  ||| ||    |   ||||  |||| ||   |   |||   ||        | ||| || |||   |                         
TCTTCCATATGGGAACTCAGTTTTCTTCAGTGTCCGGAAGATTGATGATCCAATAGGACTTTTACCTGGAAGAATCATTCTGGGAATAAACAAACGAGGGgtctgat------gcctaaccacatgttgaa----atgctatac-gttttctgccagttttagctaatttctttttctgcgtt-aatgcag-------------------------

upper sequence: GLYMA16G21340.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G070273_T01 (Zea mays), 5'ss of exon 9
ACTTCCTTATGGAAATTCTGTTTTCTTCAATGTTCGCAAGATTGATGATCCTATTGGACTCTTACCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGGgtatgactaaacaaaaaaataactagttaaactaaacattatatagtttactattacaattattaaaaaatgaactgtgcttttaattgtgttttttcttgatcaattggctatag
 ||||| ||||| || ||||||||||||| |||||| |||||||||||||| || ||| |  |||||||    || |||||||| || || ||| ||||||| |||               || |  |||   || | | ||||  ||| ||  ||     |    |   |||| |      | |||   |                         
TCTTCCATATGGGAACTCTGTTTTCTTCAGTGTTCGGAAGATTGATGATCCAATAGGATTGCTACCTGGAAAAATTATTTTGGGGATCAACAAACGAGGGgtctgatct----------cgaccatgtaatggaagcttcatattcttt-ctgctaagtaaaactgaccttgaatttctgcatgaatgcag-------------------------

upper sequence: GLYMA16G21340.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 10
ACTTCCTTATGGAAATTCTGTTTTCTTCAATGTTCGCAAGATTGATGATCCTATTGGACTCTTACCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGGgtatgactaaacaaaaaaataactagttaaactaaacattatatagtttactattacaattattaa------aaaatgaactgtgcttttaattgtgttttttcttgatcaattggctatag
||| |||||||| ||||| |||||||| | ||||||||||||||||||||| |||||||| || ||||| ||||| || ||||| ||||||||  |||||||  | |  |   | |  || | || |  | ||  |||||  | | |||  | ||  ||||||  |        ||   |   ||  ||| |||||   || ||                  
ACTGCCTTATGGGAATTCGGTTTTCTTTAGTGTTCGCAAGATTGATGATCCCATTGGACTTTTGCCTGGACGGATCATCTTGGGCATTAATAAGCGAGGGgtgagtcagagttatattatta-taatgtatctgtacattgca-aatttgatgtttgaattatagatctattgcaacagaacatgaatttgattgttcattctcacag--------------

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|208309605|gb|GE108059.1|GE108059
EST:     CCTGGCCGGATAA-TTTGGGAATTAATAAAAGAGGG                         ATTCA-TTTTTCCGTCCAGTTCCTAAGGAATATTTGCACTCAGCTGAGTTG
genomic: CCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGGgtatgactaa ... ttggctatagATTCATTTTTTCCGTCCAGTTCCTAAGGAATATTTGCACTCAGCTGAGTTG
EST: gi|208212811|gb|GE010470.1|GE010470
EST:     CCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGG                         ATTCA-TTTTTCCGTCCAGTTCCTAAGGAATATTTGCACTCAGCTGAGTTG
genomic: CCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGGgtatgactaa ... ttggctatagATTCATTTTTTCCGTCCAGTTCCTAAGGAATATTTGCACTCAGCTGAGTTG
EST: gi|208068710|gb|GD865776.1|GD865776
EST:     TTGGACTCTTACCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGG                         ATTCATTTTTTCCGTCCAGTTCCTAAGGAANATTTGCACTCAGCTGAGTTG
genomic: TTGGACTCTTACCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGGgtatgactaa ... ttggctatagATTCATTTTTTCCGTCCAGTTCCTAAGGAATATTTGCACTCAGCTGAGTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTTCCTTATGGAAATTCTGTTTTCTTCAATGTTCGCAAGATTGATGATCCTATTGGACTCTTACCTGGCCGGATAATTTTGGGAATTAATAAAAGAGGGgtatgactaaacaaaaaaataactagttaaactaaacattatatagtttactattacaattattaaaaaatgaactgtgcttttaattgtgttttttcttgatcaattggctatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG