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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAAAACCAAATGTGATGCCATATGAGAAAGAGGAGCTGCTGAATGCTGCTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacatttcattcaaaatcataaaatttgctccaggctaaacagacagcaattcctgctgttttaccaagtctcaaattctaagaaaaaggttttt...

Basic information

species Glycine max
transcript GLYMA14G07850.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G07850.2 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G073571_T01 (Zea mays), 5'ss of exon 13
GTCAAAACCAAATGTGATGCCATATGAGAAAGAGGAGCTGCTGAATGCTGCTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacatttcattcaaaatcataaaatttgctccaggctaaacagacagcaatt-----cctgc-tgttttaccaagtctcaaattcta-agaaaaaggttttt-----------------------------------------------------------------------------------
   ||| ||   ||  ||||| |  |||||||| ||| |||| || ||||||||   ||||||||| ||||||||||| ||||| || |  ||||||||||||||    | | | | ||   |  || | | || |  || |   |     ||  ||     || || |  |   | ||  |||    | || | | ||| ||||||                                                                                   
AGAAAAGCCTTCTGAAATGCCTTGCGAGAAAGAAGAGTTGCTTAACGCTGCTGTGCGTCGTGTGGATGCATTGGAAGCTGAACTAATTGTAACAAAGAAGgtaacattttattaattaagcgcgcaatagtagcacgtggttttgcttcttgcttttgcataccagcatactacgcaaaagctcgtcatgtatatataaaagtttttgcttgtttgtggtttgattagcttcagcagtttcatcagccagctgtttactatgcatcatcttatctgtgaaatttccctag

upper sequence: GLYMA14G07850.2 (Glycine max), 5'ss of exon 12
lower sequence: AT1G75370.2 (Arabidopsis thaliana), 5'ss of exon 12
GTCAAAACCAAATGTGATGCCATATGAGAAAGAGGAGCTGCTGAATGCTGCTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgt---aactacatttc---attcaaaatcataaaatttgctccaggctaaacagacagcaattcctgctgttt-----taccaagtctcaaattctaagaaaaaggttttt
 || || |   ||| ||||||   ||||||||||||| |||| ||| | ||||||||||| ||||| ||| | ||||| || || ||||||||||| |||||   ||  | |  ||   |||| |  | | |  | ||     |    | |   | ||||| |     ||| |     ||  ||  |  | | |||     || | ||   
CTCGAAGCGTCATGAGATGCCGCGTGAGAAAGAGGAGTTGCTTAATACAGCTGTTTATCGCGTGGATGCACTTGAAGCAGAGCTCATCGCTACAAAAAAGgtctaaaggaaacctctcaattccatgttaaatgacttttattaattaatatgaaaagcaactgtctttgtgtgtgtatattaacgccaacactctcc---aatgattcag

upper sequence: GLYMA14G07850.2 (Glycine max), 5'ss of exon 12
lower sequence: AT1G19650.2 (Arabidopsis thaliana), 5'ss of exon 11
GTCAAAACCAAATGTGATGCCATATGAGAAAGAGGAGCTGCTGAATGCTGCTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacatttcattcaaaatcataaaatttgctccaggctaa--acagacagcaattcctgctgtttta-ccaagtctcaaattctaagaaaaaggttttt
 ||||    |   | ||||||  | |||||||||||| |||||||||||||||| ||||||||||| ||| | ||||| || || ||| | || ||||||||    | || |     |  ||  ||||   ||    |   | |  |         ||      |||  || || | | ||    |  | ||  |        
CTCAAGGAAATCCGAGATGCCTCACGAGAAAGAGGAGTTGCTGAATGCTGCTGTATATCGTGTGGATGCACTAGAAGCAGAGCTCATCACCACGAAGAAGgtttaaaaatctatgatatgattttaaaccctgaatgatattgataatgagtcattatgaaccttgtaataaccgaatatcggtgttgatgagcag-------

upper sequence: GLYMA14G07850.2 (Glycine max), 5'ss of exon 12
lower sequence: Vv18s0001g12950.t01 (Vitis vinifera), 5'ss of exon 12
GTCAAAACCAAATGTGATGCCATATGAGAAAGAGGAGCTGCTGAATGCTGCTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacatttcattcaaaatcataaaattt--gctccaggctaaacagacagcaattcctgctgttttaccaagtctcaaattctaagaaaaaggttttt-
| |||| |||     ||||||  |||||||||| ||| |||||||||||||||||| | | ||||| || || ||||| || || || |||||||||||||||||| ||| | |    |  | ||  | ||   || |  || |  ||| | | |||| |    || ||| |  | |    || | ||  |||   |   |  
GGCAAAGCCATTCAAGATGCCTCATGAGAAAGAAGAGTTGCTGAATGCTGCTGTTTGTAGGGTGGATGCCTTAGAAGCAGAGCTAATTGCTACAAAGAAGgtaacttcatctgaactgatttaatttatttgcagcccatggatttacaaa-atcaatac--aatgcttttctgatttcacaaatttacaaaattagccatga

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|22525411|gb|BU084222.1|BU084222
EST:     TTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAG                         GCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
genomic: TTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacat ... ttctaaacagGCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
EST: gi|213594004|gb|DB983184.1|DB983184
EST:     GATCGCTACAAAGAAG                         GCTTGGTATGAAGCTTTGATTAGACAAGAAGAACTTTTGGCATACATTGAT
genomic: GATCGCTACAAAGAAGgtaactacat ... ttctaaacagGCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
EST: gi|151401385|gb|EV271199.1|EV271199
EST:     CTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAG                         GCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
genomic: CTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacat ... ttctaaacagGCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
EST: gi|209700986|gb|BW664167.1|BW664167
EST:     CTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAG                         GCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
genomic: CTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacat ... ttctaaacagGCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
EST: gi|120532823|gb|EH260956.1|EH260956
EST:     CTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCGACAAAGAAG                         GCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
genomic: CTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacat ... ttctaaacagGCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
EST: gi|18848900|gb|BM568010.1|BM568010
EST:     CTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAG                         GCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT
genomic: CTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacat ... ttctaaacagGCTTTGTATGAAGCTTTGATTAGACAAGAAGAACTTCTGGCATACATTGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCAAAACCAAATGTGATGCCATATGAGAAAGAGGAGCTGCTGAATGCTGCTGTTTATCGTGTGGACGCATTGGAAGCGGAACTGATCGCTACAAAGAAGgtaactacatttcattcaaaatcataaaatttgctccaggctaaacagacagcaattcctgctgttttaccaagtctcaaattctaagaaaaaggttttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaaa