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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTATTCCCATAACAATGATTATCTTGAAATTTGCCGTTGCTACAAGGCAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttctcttttttctgttattgtgagattctgttgttatgcgatattctgtttttctgaatattatcttttatgtgtag

Basic information

species Glycine max
transcript GLYMA05G32030.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32030.2 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os03g63430.2 (Oryza sativa), 5'ss of exon 7
GTATTATTCCCATAACAATGATTATCTTGAAATTTGCCGTTGCTACAAGGCAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttctcttttttctgttattgtgagattctgttgttatgcgatattctgtttttctg-aata-ttatctt-ttatgtgtag---------
 ||||| || || ||||||||||| || ||||| ||||||||||||||| | || ||||| ||||||||  | ||||| || ||  | |||||||| || ||||  ||      ||  |   | ||    | |   ||   |  || ||| ||  |    ||  |||  ||||||   |   || |          
CTATTACTCGCACAACAATGATTACCTGGAAATCTGCCGTTGCTACAAGTCGATTTATGAAATTCCATCAATAAAAGAGGATCCATCAAAGTGGATACCGgtaaagctctctcattcgcaagtcttacttggtgtggtgtgtgcgc-atactcactcacgctataatggttatctgactgcctgaattcgctttag

upper sequence: GLYMA05G32030.2 (Glycine max), 5'ss of exon 7
lower sequence: AT5G09900.2 (Arabidopsis thaliana), 5'ss of exon 7
GTATTATTCCCATAACAATGATTATCTTGAAATTTGCCGTTGCTACAAGGCAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttctcttttttctgttattgtgagattctgttgttatgcgat--attctgtttttctgaatattatcttttatgtgtag--------
||| ||||| ||||||||||| ||  ||||||| |||||| |||||||||| |||||||| || || || || ||||||   || |   |||||||||| ||||||       |  | | |||  |  ||  |   |||  ||| |  |  ||   |||  | | |  | | ||||| || |  |         
GTACTATTCTCATAACAATGAGTACATTGAAATCTGCCGTAGCTACAAGGCGATATATGATATCCCTTCAGTAAAAGAAACTCCGGAGCAGTGGATTCCGgtaagc-------tcatgccgttgattggatgtatagttagtatacattctatagggttagtgtaataactttctttgatcttcaaaacattag

upper sequence: GLYMA05G32030.2 (Glycine max), 5'ss of exon 7
lower sequence: AT5G64760.2 (Arabidopsis thaliana), 5'ss of exon 7
GTATTATTCCCATAACAATGATTATCTTGAAATTTGCCGTTGCTACAAGGCAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttctcttttttct-----gttattgtgagattctgttgttatgcgatattct-------gtttttctgaatattatcttttatgtgtag
||||||||| || |||||||| ||  |||| || |||||| |||||||||| |||||||| || || ||||| || ||| |||| |   | |||||||||||||| ||  | || ||  |     | | |||||  | |||   ||| ||  ||   ||         ||||||   | | ||| | ||  | |||
GTATTATTCTCACAACAATGAGTACATTGAGATATGCCGTAGCTACAAGGCGATATATGATATCCCTTCTGTAAAGGAAAACCCAGAACAATGGATTCCAgtaagtctcgtattgttgtttggatgatcttgtggtagtctac-gttctgtaattagcttggattaacttttctccct-tgatcctctaaatatag

upper sequence: GLYMA05G32030.2 (Glycine max), 5'ss of exon 7
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 7
GTATTATTCCCATAACAATGATTATCTTGAAATTTGCCGTTGCTACAAGGCAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttctcttttttctgttattgtgagattctgttgttatgcgata-ttctgtttttctgaatattatcttttatgtgtag
|||| | ||||| | ||||||||| ||||||||||| ||| |||| ||||| |||||||| || |||||||||| |||||| || ||  ||||||| || ||||    ||| ||   | | |   | ||   || |||| || ||    |  |||     |||| || |                
GTATCACTCCCACAGCAATGATTACCTTGAAATTTGTCGTAGCTATAAGGCGATATATGAAATCCCATCTGTCAGAGAAGATCCAGCTCAGTGGATACCGgtaaagaatcttttccatgtatgcctttgcccttttgtttttttggagcaactctaacaatctgcatgtag--------------

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|19053473|gb|BM732140.1|BM732140
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
EST: gi|37994245|gb|CF805991.1|CF805991
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
EST: gi|254341094|gb|GR854822.1|GR854822
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
EST: gi|18734862|gb|BM528428.1|BM528428
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
EST: gi|308098502|gb|HO760243.1|HO760243
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGT
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGT
EST: gi|17400997|gb|BM177779.1|BM177779
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
EST: gi|22541281|gb|BU091124.1|BU091124
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
EST: gi|9564218|gb|BE473727.1|BE473727
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
EST: gi|11412649|gb|BF424660.1|BF424660
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
EST: gi|17022950|gb|BM093984.1|BM093984
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
EST: gi|12691513|gb|BG157849.1|BG157849
EST:     CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA                         ATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG
genomic: CAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttc ... ttatgtgtagATCCTAAGGAAAATATGTTGGTACTTGGTTCTAGCGCCCTATGATCCAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTATTCCCATAACAATGATTATCTTGAAATTTGCCGTTGCTACAAGGCAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCAgtaagccttctcttttttctgttattgtgagattctgttgttatgcgatattctgtttttctgaatattatcttttatgtgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA