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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTCTTCCAGTTGCTTTTGGTGCTGAAACTGCAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaattttgttcccttaaatatatatacaaataattgctctatatacaaacaaaacagttagaaacttgtcaccatattcacttaatcattatccttg...

Basic information

species Glycine max
transcript GLYMA18G43310.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G43310.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os05g28200.2 (Oryza sativa), 5'ss of exon 11
GTCTCTTCCAGTTGCTTTTGGTGCTGAAACTGCAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaattttgttcccttaaatatatatacaaataattgctctatatacaaacaaaacagttagaaacttgtcaccatattcacttaatcattatccttg------
 || || || ||||||||||||   ||||||||||||||||| ||||| || || |||||||| || |||||||| || || ||||||          || | ||| |          ||| |  | | |  | |   |  | |  |   | ||  |  |  | |  |  ||  | |  |        
-TCACTCCCGGTTGCTTTTGGTATGGAAACTGCAAAGTGGATATGTGTAGGAGCGATTGACATAACTCAATTATCCGTTGCAGgtaaagacatgcattttcattatgtt-----gcttttgtttcaaacattatcttcaaggctgtatcttggtttcattgattatgtggtccatgttgtcaacttgt

upper sequence: GLYMA18G43310.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G162672_T02 (Zea mays), 5'ss of exon 12
GTCTCTTCCAGTTGCTTTTGGTGCTGAAACTGCAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaat--tttgttcccttaaatatatata-caaataattgctctatatacaaacaaaacagttagaaacttgtcaccatattcacttaatcattatccttg
 || ||||| |||||||||||    ||||||||||| ||||| |||||||| || ||||| || || ||||||||||| || || ||    | |||| | ||     | ||||  | | |   ||  |   | |||     || ||   |      ||  ||||     ||    |||  || ||
-TCACTTCCTGTTGCTTTTGGGATGGAAACTGCAAAATGGATTTGTGTTGGAGCAATTGATATCACTCAATTATCTGTTGCAGgcaaggcatctgttgcttttttcctttataatacaaatccgccttcacttcaattcttactgtactagctcgatctgcataccatttt--ctatttgccatg

upper sequence: GLYMA18G43310.1 (Glycine max), 5'ss of exon 12
lower sequence: AT3G51820.1 (Arabidopsis thaliana), 5'ss of exon 11
-----------------GTCTCTTCCAGTTGCTTTTGGTGCTGAAACTGCAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaattttgttcccttaaatatatatacaaataattgctctatatacaaacaaaacagttagaaacttgtcac-catattcacttaatcatta-tccttg--
                 |||||| ||||| ||||||||  | ||||||||||| ||||| || ||||| ||||| |||||||| ||  | ||||| || ||||  |  | | | ||    | | | | ||  |      ||||| |     |       |||  |||| |  |  ||       | || ||  | |   ||  
AGAGCATTAGGACTTCAGTCTCTCCCAGTAGCTTTTGGCACCGAAACTGCAAAATGGATATGCGTTGGTGCTATAGACATTACTCAGCTTTCTGTTGCCGgtatgtactatccact---gtttttgtgcagctgtggcttctatttcttttccttgatcttatcaactggatattcaccaatggtaaagcacaaattaatgaa

upper sequence: GLYMA18G43310.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv08s0105g00590.t01 (Vitis vinifera), 5'ss of exon 12
GTCTCTTCCAGTTGCTTTTGGTGCTGAAACTGCAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaattttgttccct-taaatatatatacaaataattgctctatatacaaacaaaacagttagaaacttgtcacc-atattcacttaatcattatccttg
 || || || || || ||||||||||||||||| || ||||| ||||| || ||||||||||| || || ||||| || || |||| ||  | ||  || |   |   | |     |  ||  ||| | |  ||      ||   | |  | |||  |  |     |   ||| |  |    | 
-TCCCTACCGGTGGCATTTGGTGCTGAAACTGCTAAATGGATTTGTGTGGGTGCTATTGACATCACTCAGTTATCAGTGGCTGgtatataatatttgctgttgttggtttttttttttttttttctttttttaatgtttgcatcaatattcatgttgctgacccctataaaatgaagacttct-

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|8826413|gb|BE210143.1|BE210143
EST:     CAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCG                         GGATATCTACTTGGGGCTGATAAACCGTTTTATGCGTTAGCTTTACTTGGC
genomic: CAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaatttt ... tatggttgcaGGATATCTACTTGGGGCTGATAAACCGTTTTATGCGTTAGCTTTACTTGGC
EST: gi|15203846|gb|BI426614.1|BI426614
EST:     CAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCG                         GGATATCTACTTGGGGCTGATAAACCGTTTTATGCGTTAGCTTTACTTGGC
genomic: CAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaatttt ... tatggttgcaGGATATCTACTTGGGGCTGATAAACCGTTTTATGCGTTAGCTTTACTTGGC
EST: gi|16276277|gb|BI941773.1|BI941773
EST:     CAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCG                         GGATATCTACTTGGGGCTGATAAACCGTTTTATGCGTTAGCTNTACTTGGC
genomic: CAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaatttt ... tatggttgcaGGATATCTACTTGGGGCTGATAAACCGTTTTATGCGTTAGCTTTACTTGGC
EST: gi|16349016|gb|BI974611.1|BI974611
EST:     CAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCG                         GGATATCTACTTGGGGCTGATAAACCGTTT
genomic: CAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaatttt ... tatggttgcaGGATATCTACTTGGGGCTGATAAACCGTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTCTTCCAGTTGCTTTTGGTGCTGAAACTGCAAAGTGGATCTGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCGggtaaattttgttcccttaaatatatatacaaataattgctctatatacaaacaaaacagttagaaacttgtcaccatattcacttaatcattatccttg

- - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaaaa