Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACTAGAAGTTTGAGTGGGCTTTCGGTCAGGAGGTCTTTAGTTGGTTCATTTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatatatgctatttatcatactgttaattgatcttgttcatgattctaaacttcagtgcactgaaaacttttagacaactaacctgtggttgtttgttgctattcttattatatgtag

Basic information

species Glycine max
transcript GLYMA16G05600.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G05600.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv14s0068g01450.t01 (Vitis vinifera), 5'ss of exon 1
CACTAGAAGTTTGAGTGGGCTTTCGGTCAGGAGGTCTTTAGTTGGTTCATTTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatatatgctatttatcatactgttaattgatcttgttcatgattctaaacttcagtgcactgaaaactttt------agacaactaacctgt-----ggttgtttgttgctatt--cttattatatgtag
   ||||| ||||||  | ||| | || |||||||| ||||||||||||||||||||||| || || ||||| ||||||| || ||||||    |   ||||  |  | | || | | ||  |||  | ||     |  |||  ||  |||   | || |   |  ||| ||  | |      ||| | || |  | |        ||  | ||| |  |  |||||| | |||||
AGTTAGAAATTTGAGCAGACTTCCTGTTAGGAGGTCCTTAGTTGGTTCATTTGAGGAGTCCCTATTGTCTGGTCGGTTCTCATATGGAAAATTCAATCAGgttagtgtttgtgttgtgtaatata--gatagccttttctgtagatagttccttatttaat--ctttgagaatctctctccaaagatatctgatttttctttcaactgcctattgttggtgccttatt-tttgtag
















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|193409470|gb|FK370492.1|FK370492
EST:     TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGANGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
EST: gi|207802364|gb|GD775596.1|GD775596
EST:     TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
EST: gi|207729191|gb|GD706737.1|GD706737
EST:     TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
EST: gi|10236779|gb|BE805667.1|BE805667
EST:     TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
EST: gi|208196048|gb|GD992579.1|GD992579
EST:     TTGAGGAGTCTC-TTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTTGCTGTGCTAAGCATT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATT
EST: gi|208113555|gb|GD913378.1|GD913378
EST:     TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACT
EST: gi|193311799|gb|FK274715.1|FK274715
EST:     AACAATAGCAAG                         AAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
genomic: AACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
EST: gi|192312930|gb|FK005486.1|FK005486
EST:     TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTTGCCGTGCTAAGCATTACTGGTGGGAACTTTTCT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
EST: gi|208262058|gb|GE058383.1|GE058383
EST:     TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTT
EST: gi|10236805|gb|BE805693.1|BE805693
EST:     TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATTACTGGTGGGAACTTTTCT
EST: gi|193449006|gb|FK414711.1|FK414711
EST:     TTGAGGGGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTTGCTGTGCT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCT
EST: gi|208287040|gb|GE082198.1|GE082198
EST:     TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAG                         AAAATCGATGGTTTTCTTGCTGTGCTAAGCATT
genomic: TTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatat ... ttatatgtagAAAATCGATGGTTTTCTTGCTGTGCTAAGCATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACTAGAAGTTTGAGTGGGCTTTCGGTCAGGAGGTCTTTAGTTGGTTCATTTGAGGAGTCTCTTTTATCTGGCCGGTTCTTATCTGGAAACAATAGCAAGgtctggatatatgctatttatcatactgttaattgatcttgttcatgattctaaacttcagtgcactgaaaacttttagacaactaacctgtggttgtttgttgctattcttattatatgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG