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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAAGTGGTGAATGGTGGAGATCCTCGTCTTCGGGGTTGCATCGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgatgttatagggtatcttctgtcttgtcaatgcaaattctgcttgcttgtattttgttgaactaatttttatgttgctcacacttgcactattaatttggtattttccttgtccgtgctttgcgcttgcaatatcttgcag

Basic information

species Glycine max
transcript GLYMA20G18290.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G18290.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ07623 (Selaginella moellendorffii), 5'ss of exon 2
AGAAAGTGGTGAATGGTGGAGATCCTCGTCTTCGGGGTTGCATCGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgatgttatagggtatcttct----gtcttgtcaatgcaaattctgcttgc--ttgta---------ttttgttg--aactaatttttatgttgctcacacttgcac-------tattaatttggtattttccttgtccgtgctttgcgcttgcaatatcttgcag
||||||| |||||||||||||| |||||  | || || |||||||| || |||||||| ||| ||||||||| |||  |||| ||||| ||| |||||||||  | |  | |  | |  |  | |      | |||||||  |||   | || ||    || ||          ||  |||  | ||| | |||  || ||  |   | |  |       | | ||     ||  |     |    ||   |   ||     ||| || |||
AGAAAGTTGTGAATGGTGGAGAGCCTCGCTTGCGAGGATGCATCGGGACGCTGGAAGCTCGCTGCTTGATCACTGGCTTCAAGGATTACGCATTGACCAGgtgcgctcttttggttgcttggcgtgaaagagccttgtcatggcaccatttgtttatggttttaagtggatgccttccttgctagctagtgtttg-gtagccgagtttcgagcgaaaagatgtgaaaaaaataagtggaaggatgttgacctcttctctacctatgtttcag

upper sequence: GLYMA20G18290.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ11024 (Selaginella moellendorffii), 5'ss of exon 2
AGAAAGTGGTGAATGGTGGAGATCCTCGTCTTCGGGGTTGCATCGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgatgttatagggtatcttct----gtcttgtcaatgcaaattctgcttgc--ttgta---------ttttgttg--aactaatttttatgttgctcacacttgcac-------tattaatttggtattttccttgtccgtgctttgcgcttgcaatatcttgcag
||||||| |||||||||||||| |||||  | || || |||||||| || |||||||| ||| ||||||||| |||  |||| ||||| ||| |||||||||  | |  | |  | |  |  | |      |||||||||  |||  || || ||    || ||          ||  |||  | ||| | |||  || ||  |   | |  |       | | ||     ||  |     |    ||   |   ||     ||| || |||
AGAAAGTTGTGAATGGTGGAGAGCCTCGCTTGCGAGGATGCATCGGGACGCTGGAAGCTCGCTGCTTGATCACTGGCTTCAAGGATTACGCATTGACCAGgtgcgctcttttggttgcttggcgtgaaagagtcttgtcatggcaccttttgtttatggttttaagtggatgccttccttgctagctagtgtttg-gtagccgagtttcgagcgaaaagatgtgaaaaaaataagtggaaggatgttgacctcttctctacctatgtttcag
















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|298199395|gb|HO042758.1|HO042758
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|192329677|gb|FK022943.1|FK022943
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|207765488|gb|GD738659.1|GD738659
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAAGAATTTCCACCCATACA
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGA-GA-TTTCCACCCATACA
EST: gi|24136395|gb|BU926905.1|BU926905
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|10845842|gb|BF071193.1|BF071193
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|7327188|gb|AW621050.1|AW621050
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|209702527|gb|BW667160.1|BW667160
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|298180474|gb|HO022027.1|HO022027
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|213598937|gb|DB971951.1|DB971951
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|209727621|gb|BW663781.1|BW663781
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|208292285|gb|GE091069.1|GE091069
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCGCCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|209726453|gb|BW662818.1|BW662818
EST:     CTGGAAGCACGCACCCTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|15285733|gb|BI469624.1|BI469624
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|27424259|gb|CA935779.1|CA935779
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|14012066|gb|BG726997.1|BG726997
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|208119614|gb|GD915195.1|GD915195
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|209708643|gb|BW678820.1|BW678820
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
EST: gi|298192011|gb|HO036093.1|HO036093
EST:     CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAG                         TGCCCTCAGGAACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT
genomic: CTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgat ... tatcttgcagTGCCCTCAGGGACCGGAGATTTCCACCCATACAGGCTAATGAGCTGCCGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAAGTGGTGAATGGTGGAGATCCTCGTCTTCGGGGTTGCATCGGAACTCTGGAAGCACGCAGCTTGATCAATGGGCTCAAAGATTATGCACTGACCAGgtttgttgatgttatagggtatcttctgtcttgtcaatgcaaattctgcttgcttgtattttgttgaactaatttttatgttgctcacacttgcactattaatttggtattttccttgtccgtgctttgcgcttgcaatatcttgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT