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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGGCTTTTTCCTGGTGCAATATGGTCACTTGTGGCAAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttatacacattccattcatatctatggatcaataaagctatcttcattaacagtatatttatttgatttttgctagttgctatacttagcagttgctatgctagtttgtgatccttaactttctcgtttcttcatacag

Basic information

species Glycine max
transcript GLYMA02G15070.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G15070.1 (Glycine max), 5'ss of exon 16
lower sequence: LOC_Os09g28570.1 (Oryza sativa), 5'ss of exon 16
TCTGGCTTTTTCCTGGTGCAATATGGTCACTTGTGGCAAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttatacacattccattcatatctatggatcaataaagctat-cttcattaacagtatatttatttgatttttgctagttgctatacttagcagttgctatgctagtttgtgatccttaactttctcgtttcttcatacag
 |||| ||||||||  | || |||| ||||||||||||||| |||||||||| ||| ||| | || ||  | || ||||||||||||||| |       | | | ||  | || | ||  |        |||| | | | ||     | |   |    |  |  | |||   || || || |  | ||                                            
GCTGGTTTTTTCCTAATCCAGTATGCTCACTTGTGGCAAGATCATCTTGACAAACTTTTTGACCTGTATGCCTCTGGAAAGCTAAAGgtatgcctcgagcctccaatgtaaatttctgtttggcc----ctatgcatgactagggtcaaaacgaagctacatcag-taggacctttatttgggtgatgaggc----------------------------------------

upper sequence: GLYMA02G15070.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G479068_T01 (Zea mays), 5'ss of exon 4
TCTGGCTTTTTCCTGGTGCAATATGGTCACTTGTGGCAAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttatacacat-tccattcatatctatggatcaataaagctatcttcattaacagtatatt-tatttgatttttgctagttgctatacttagcagttgctatgctagtttgtgatccttaactttctcgtttcttcat--acag
 |||||||||||||||| |||||||  ||| |||||||||| |||||||| | ||| ||||| || || || || ||||||||||||||| | |  |||  | |   |   |  ||| |   |      | |   ||  || |    | |          | | | || ||| || |  ||   |     ||  | |  ||    |  |  |  |||   ||||| | |  ||||
GCTGGCTTTTTCCTGGTCCAATATGCGCACCTGTGGCAAGACCATCTTGAAAAACTGTTTAACCTGTATTCCTCTGGAAAGCTAAAGgtatggttcacatttgtgtctctcttgctacgacgcgcagtggttcctttgtttcatgaaaaaccacgaccattctctactcgtt-ctgtgtttgtgaaaccgtactc-atcttacatttttcgaacttcaactttctgcgttaacag

upper sequence: GLYMA02G15070.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G147191_T02 (Zea mays), 5'ss of exon 16
TCTGGCTTTTTCCTGGTGCAATATGGTCACTTGTGGCAAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttataca---cattccattcatatctatg---gatcaataaagctatcttcattaacagtatatttatttgatttt-tgctagttgctatacttagcagttgctatgctagtttgtgatccttaacttt---------ctcgtttcttcatacag-----------------------
 |||| |||||||| || || |||| ||||||||||||||| |||||| ||| ||| ||| | || ||  | || ||||||||||||||| | |  | |    || ||| ||  | |   |       |||  |  ||     || |  |   || |  |   ||||| ||||  |       | ||  | ||  |  | || ||| | |||  ||| ||          ||    | ||||| |                         
GCTGGATTTTTCCTTGTTCAGTATGCTCACTTGTGGCAAGATCATCTTAACAAACTTTTTGACCTGTATGCCTCTGGAAAGCTAAAGgtatgctccataatttatgccactccaagcagggcctagcaaatggaaataatcagatgactaccttactcctaatattttgtgctcatgatggatcata--aattcgtgcgataatttat-atctataatttcaccttgtaacttaccttttcatgccataccacgatatggcgtgtaacag

upper sequence: GLYMA02G15070.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv03s0063g00610.t01 (Vitis vinifera), 5'ss of exon 16
TCTGGCTTTTTCCTGGTGCAATATGGTCACTTGTGGCAAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttatacacattccattcatatctatggatcaataaagctatcttcattaacagtatatttatttgatttttgctagttgctatacttagcagttgctatgctagtttgtgatccttaactttctcgtttcttcatacag
 |||||||||||||||||||||||| |||||| |||||||||||| | ||||| || ||| |||||| ||| | ||||||||| |||||||  ||| |         |||  | ||||  ||| ||   | |||||  |  |  | | | ||||||  ||||   ||  ||    |  ||  || |||| |     |||  |                             
GCTGGCTTTTTCCTGGTGCAATATGCTCACTTATGGCAAGAACATTTGGACAGGCTTTTTCATCTTTTCTCCTTGGGAAAGCTTAAGgtaacgtatcc---------tcaactatatgtttcagta---ccatctttgtagaatgga-agttattt--ttttcagtatgtgtctcatctataagatgcttttgccatttcag-----------------------------

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|213602767|gb|DB968937.1|DB968937
EST:     AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAG                         GTTGCTATTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGC
genomic: AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttata ... cttcatacagGTTGCTATTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGC
EST: gi|37997225|gb|CF808814.1|CF808814
EST:     AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAG                         GTTGCTATTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGCAGACGCT
genomic: AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttata ... cttcatacagGTTGCTATTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGCAGACGCT
EST: gi|4395823|gb|AI494820.1|AI494820
EST:     AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAG                         GTTGCTANTTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGC
genomic: AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttata ... cttcatacagGTTGCTA-TTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGC
EST: gi|4290814|gb|AI441672.1|AI441672
EST:     AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAG                         GTTGCTANTTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGC
genomic: AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttata ... cttcatacagGTTGCTA-TTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGC
EST: gi|6200887|gb|AW152987.1|AW152987
EST:     AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAG                         GTTGCTATTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGCAGACGCT
genomic: AAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttata ... cttcatacagGTTGCTATTGATCCAAAGAAATTTATAGGCCTGCATTCTGCTGCAGACGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTGGCTTTTTCCTGGTGCAATATGGTCACTTGTGGCAAGAACATCTTGACAGACTATTTAATCTTTACTCTTCGGGAAAGCTAAAGgtaagttatacacattccattcatatctatggatcaataaagctatcttcattaacagtatatttatttgatttttgctagttgctatacttagcagttgctatgctagtttgtgatccttaactttctcgtttcttcatacag

- - - - - - - - - - - - - - - - - -  AAGAAC