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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCCGCCCCCCTCGTCGCCTTCCTCCAGAACGAGGCTGCTGTGCAGGAGCTCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggttttaccggatggttggttgaatgttgtttttatacacaacaattgacgtggctttgattggtggtgtggtgtttgcatagtattcatattg...

Basic information

species Glycine max
transcript GLYMA10G16090.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G16090.1 (Glycine max), 5'ss of exon 2
lower sequence: AT3G57290.1 (Arabidopsis thaliana), 5'ss of exon 2
CGCCGCCCCCCTCGTCGCCTTCCTCCAGAACGAGGCTGCTGTGCAGGAGCTCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggttttaccggatggttggttgaatgttgtttttatacacaacaattgacgtggctttgattg-gtggtgtggtgtttgcatagtattcatattg------------
 || || || |||||  | || ||   ||||      ||||||||||||||  |||| |||||||||||||||||||| |||||||| || || || ||||||   | |||    |  |   | ||| ||| ||||    | |    |     ||  ||| |||| ||| ||  |||||       ||  |||     |||            
TGCTGCACCACTCGTGTCTTTTCTTTTGAACCCTAACGCTGTGCAGGAGCTAAGAGCTGACAAGCAGTACAATCTCCAAATGCTCAAGGAACGCTACCAGgtt-gtgatttggatgattaagttgtttaattttgtg---aaatgttatc-cagatttggttttgtttgtgtattgtggaacacaaatcttatatggcttggtgtcttatcag
















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|11274704|gb|BF325039.1|BF325039
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|7147523|gb|AW509445.1|AW509445
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGA-CCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|209696602|gb|BW666924.1|BW666924
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|7284976|gb|AW597463.1|AW597463
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|298198687|gb|HO042050.1|HO042050
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|254348331|gb|GR852010.1|GR852010
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|254316955|gb|GR828492.1|GR828492
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|209697044|gb|BW667034.1|BW667034
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|298167046|gb|HO010485.1|HO010485
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|298178685|gb|HO024420.1|HO024420
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|6666245|gb|AW277704.1|AW277704
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|209707121|gb|BW661575.1|BW661575
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|13240397|gb|BG359706.1|BG359706
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|209703907|gb|BW661597.1|BW661597
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|7284217|gb|AW596813.1|AW596813
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|209721328|gb|BW665794.1|BW665794
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|7588257|gb|AW704056.1|AW704056
EST:     GGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: GGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|15204029|gb|BI426797.1|BI426797
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
EST: gi|298181436|gb|HO022875.1|HO022875
EST:     TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAG                         ATTGGTCCCGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT
genomic: TCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggtt ... gctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCCGCCCCCCTCGTCGCCTTCCTCCAGAACGAGGCTGCTGTGCAGGAGCTCCGAGCGGACAAGCAGTACAATCTCCAGATGCTCAACGACCGATATCAGgtttagggttttaccggatggttggttgaatgttgtttttatacacaacaattgacgtggctttgattggtggtgtggtgtttgcatagtattcatattg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgtgg