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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGACCAAGAGTTTTATCTGTCTATTGTTTCTGAAAGGCTTGGCTCCACTATCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattgaatcatgttactcttactgttttatttgctctgccttgtttgctgccgtatttatgcttcgtttctgcttgttactgttaattatcag

Basic information

species Glycine max
transcript GLYMA03G38810.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G38810.3 (Glycine max), 5'ss of exon 3
lower sequence: PP1S63_54V6.2 (Physcomitrella patens), 5'ss of exon 5
CGACCAAGAGTTTTATCTGTCTATTGTTTCTGAAAGGCTTGGCTCCACTATCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattgaatcatgttactcttactgtt--ttatttgctctgccttgtttgctgccgtatttatgcttcgtttctgcttgttactgtta-attatcag---------------------------------------------------------------------------
|  | | || || || || |||||||| || ||  |||||||  | | ||||||||||||||||||||| || || ||||||||||| || ||||| || |   ||     |||||   ||  | |||||  || ||| |   |  | | |||  | |  || |   ||    |     || | | ||||  | |  ||                                                                            
CAGCGACGAATTCTACCTATCTATTGTGTCAGATCGGCTTGGAGCTAATATCAGCTTCTCCGAATGTGGAGGTATAGAAATTGAAGAAAACTGGGAAAAAg---taagagctcatgactcttgtgctgttatttcttttcatagattggattggggacagatctggactagactggaagtt-tcattgttctacttccaagtttgtttatttctatgagaccttaccggccgcctgtttcttagccaatgttggactaatctggatggggttcag
















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|298192506|gb|HO036588.1|HO036588
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATACTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
EST: gi|7588547|gb|AW704270.1|AW704270
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGTGATAAG                         GTCACAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
EST: gi|213596238|gb|DB960170.1|DB960170
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
EST: gi|298186643|gb|HO037276.1|HO037276
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATACTCCTTCCGACGGAAAAACCATTGACTCC
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCC
EST: gi|298181603|gb|HO025778.1|HO025778
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATATTCCTTCCGA
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGA
EST: gi|151395479|gb|EV265356.1|EV265356
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
EST: gi|10846293|gb|BF069216.1|BF069216
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAGG                         GTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
EST: gi|298186900|gb|HO033999.1|HO033999
EST:     TCAGCTTCTCCGAGTGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
EST: gi|120495312|gb|EH223479.1|EH223479
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
EST: gi|208082005|gb|GD879507.1|GD879507
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATAG
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCAT-G
EST: gi|37997687|gb|CF809276.1|CF809276
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
EST: gi|151407958|gb|EV277773.1|EV277773
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
EST: gi|15202616|gb|BI425495.1|BI425495
EST:     TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAG                         GTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT
genomic: TCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattga ... taattatcagGTCAAAACTATATTCCTTCCGACGGAAAAACCATTGACTCCGGAGGCATGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGACCAAGAGTTTTATCTGTCTATTGTTTCTGAAAGGCTTGGCTCCACTATCAGCTTCTCCGAATGTGGCGGCATTGAAATTGAAGAGAATTGGGATAAGgtgttattgaatcatgttactcttactgttttatttgctctgccttgtttgctgccgtatttatgcttcgtttctgcttgttactgttaattatcag

- - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA