Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTTATGGAAGGGGCTTACAATCGTGTCTTGAGTGCACGGCAGACAGTGCCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattgtattgttgttttatttaattgcctagtggatggttgaactcttactctagtgataaactagtgaaaactggaactactgcttgatttctt...

Basic information

species Glycine max
transcript GLYMA08G08690.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G08690.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv02s0025g02010.t01 (Vitis vinifera), 5'ss of exon 4
CTTTTATGGAAGGGGCTTACAATCGTGTCTTGAGTGCACGGCAGACAGTGCCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattgtattgttgttttatttaattgcctagtggatggttgaactcttactctagtgataaacta-gtgaaaactggaactactgcttgatttctt
|||| |||||||| |||||||||||||| ||||||||  | ||||||||||| ||||| || || |||||||||||||||||  |||| ||||| ||||||||| || | |    |     | |  ||  |  || |  ||    | |   |||      | |  ||| |     || |         ||| |  ||||  
CTTTCATGGAAGGAGCTTACAATCGTGTGTTGAGTGCTAGACAGACAGTGCCCCATGAAACTTATGTTTATTTCATGGATCTGCTGGCGAAGACAGTCAGgtaaaaactttgacttgagcctctagaaggggttaataaatttcaggaaatttaaaacgataaccaaccacacacaagccaccgactttgcatattttcc-

upper sequence: GLYMA08G08690.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S48_71V6.1 (Physcomitrella patens), 5'ss of exon 5
CTTTTATGGAAGGGGCTTACAATCGTGTCTTGAGTGCACGGCAGACAGTGCCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattgtattgttgttttatttaattg--cctagtggatggttgaactcttactctagtgataaactagtgaaaactggaactactgct--tgatttctt--------------------
|||| ||||| || ||||||||||||||  |||||||||| ||  | || |||||||| || ||||| || || ||||| ||| | || ||||||||||||||  | |  |||   | |  |  ||   ||    || ||  |   |    |  |   | ||  |||  ||  ||    | |||| || || |  |||| |  |                    
CTTTCATGGAGGGTGCTTACAATCGTGTGCTGAGTGCACGTCAAGCTGTTCCACATGAAACTTACGTGTACTTTATGGACCTTCTTGCTAAGACTGTCAGgtatgattcctatatatataatggttttctgggtttattgcgtacattctgttctttgcaaggaatatgctcttgttttcgggaa-tattggtaatgatgtactttcattatcatcgtgcacag
















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|38192359|gb|CF921565.1|CF921565
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|10253750|gb|BE821516.1|BE821516
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|31470217|gb|CD412185.1|CD412185
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|31472558|gb|CD414586.1|CD414586
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|12689998|gb|BG156334.1|BG156334
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTTGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGC
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGC
EST: gi|213593322|gb|DB975401.1|DB975401
EST:     CGA-ATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: C-ACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|192303536|gb|FG998602.1|FG998602
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|192326943|gb|FK019220.1|FK019220
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|16106170|gb|BI893910.1|BI893910
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|192317900|gb|FK009436.1|FK009436
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|7028191|gb|AW457974.1|AW457974
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|58018381|gb|CX705123.1|CX705123
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|192317899|gb|FK009435.1|FK009435
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAG-TTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|192326357|gb|FK015889.1|FK015889
EST:     CACATGATACATACGTTTATTTCATGGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CACATGATACATACGTTTATTTCATGG-ATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|193593562|gb|FK546654.1|FK546654
EST:     AAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: AAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|298188986|gb|HO035711.1|HO035711
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|6719669|gb|AW307316.1|AW307316
EST:     CATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
EST: gi|192294009|gb|FG987178.1|FG987178
EST:     CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAG                         AGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA
genomic: CCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattg ... aaacattcagAGATGAAATAGCAGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTTTATGGAAGGGGCTTACAATCGTGTCTTGAGTGCACGGCAGACAGTGCCACATGATACATACGTTTATTTCATGGATCTTTTGGCAAAGACTGTCAGgtaataattgtattgttgttttatttaattgcctagtggatggttgaactcttactctagtgataaactagtgaaaactggaactactgcttgatttctt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG