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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAGAGCCTATCTTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgttaatagacattttattttcatttttttaaattagtaacttcaactgttctttgtttattttgatttagtcttctttttttttccagtttagc...

Basic information

species Glycine max
transcript GLYMA13G17200.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G17200.2 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os07g42380.1 (Oryza sativa), 5'ss of exon 2
ATAGAGCCTATCTTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgttaatagacattttattttcatttttttaaattagtaacttcaactgttctttgtttattttgatttagtcttctttttttttccagtttagc-
|||||||| ||| | | |||||||||||| |||||||||||| ||||| |||||||||||||||||||   | |||  ||| | ||||  ||||||||  ||  |  ||||   || |      |   |  | |   |  ||    |||    ||  ||  | 
ATAGAGCCAATCCTTACTGGAAATCTGCCTCCTGGCTTTGATACGAGTACATGCCGCAGTGTgtgagtcccattagggattct-ttttattttttttattttcttttcttcgtatgcttgaaaatgcataagttcatgctttggactttagggcatcttttcc

upper sequence: GLYMA13G17200.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv11s0016g00700.t01 (Vitis vinifera), 5'ss of exon 2
ATAGAGCCTATCTTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta-atagacattttattttcatttttttaaattagtaacttcaactgttctttgtt--tattttg-atttagtcttctttttttttccagtttagc
||||||||||||||||||||||||||||| ||||| |||||||| ||| ||||||||||||||||||||| | ||||||||||| || |  |||  ||   || ||   ||    | |  |||| |  ||||||   |||| ||||   ||| |   || ||    
ATAGAGCCTATCTTGAGTGGAAATCTGCCTCCTGGGTTTGATTCAAGTACATGCCGCAGTGTgtgagtgtcatatagacattttcttcttttttgattcttttcgtgtgttttggtttcttttgctcttattttatgtttattctttcgtttgtcaacactt----

upper sequence: GLYMA13G17200.2 (Glycine max), 5'ss of exon 2
lower sequence: EFJ13606 (Selaginella moellendorffii), 5'ss of exon 2
ATAGAGCCTATCTTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgttaatagacattttattttcatttttttaaattagtaacttcaactgttctttgtttattttgatttagtcttctttttttttccagtttagc-----------------------------------------------------------------------------------------------
|| ||||| ||    ||||||||||||||||| || |||||| | | ||| || ||||||||||||||| |  |     |||| ||||   ||||||    ||  || ||||  | |   || | | |||| | ||  || | ||| ||||| |  ||| |                                                                                                
ATTGAGCCAATTCCAAGTGGAAATCTGCCACCAGGGTTTGATGCAACTTCTTGTCGCAGTGTgtgagtgcttttcttt-ttttcttttttcttttttgttgtaccaa-ttcaggtatctgttttcttttttcaatt--tcctttttcttttttccttttggttgtttattaacttaaaaactatgctgagcttgggccgtcattgctttggttgcggaatgattttgtttctagtctgatgttcattcctgctgcag

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|208178646|gb|GD977087.1|GD977087
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAG
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAG
EST: gi|193620760|gb|FK568484.1|FK568484
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAG
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAG
EST: gi|208232849|gb|GE030376.1|GE030376
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGGTTCCCTTCTTCAAGAGCT
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
EST: gi|208035174|gb|GD835518.1|GD835518
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
EST: gi|13252197|gb|BG363100.1|BG363100
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
EST: gi|193328920|gb|FK295164.1|FK295164
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
EST: gi|208052196|gb|GD853481.1|GD853481
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
EST: gi|13789938|gb|BG652529.1|BG652529
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTTT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
EST: gi|19348273|gb|BM892805.1|BM892805
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
EST: gi|207709716|gb|GD692304.1|GD692304
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
EST: gi|42723064|gb|CK768963.1|CK768963
EST:     TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGT                         TTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT
genomic: TTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgtta ... gtatatgcagTTATGTTGGCAACATTCATCCCCAGGTTACAGATTCCCTTCTTCAAGAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAGAGCCTATCTTGAGTGGAAATCTGCCACCTGGCTTTGATTCGAGTTCATGCCGCAGTGTgtgagtgttaatagacattttattttcatttttttaaattagtaacttcaactgttctttgtttattttgatttagtcttctttttttttccagtttagc

- - - - - - -  AGTGGA