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

gtactcttcatttcttactttcctctttaattaaccaaaattgcttccttttttttttctttgattattattggtcctgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC

Basic information

species Glycine max
transcript GLYMA01G39420.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g36050.1 (Oryza sativa), 3'ss of exon 2
-----------------------------------------gtactcttcatttcttactttcctctttaattaaccaaa--attgcttcct-tttttttttctttgattattattggtcc-----tgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC
                                          |  | ||| || |||  |||     ||   | |||| |  ||| || |||   |  |    |   |  |||  | | |        ||| || ||||| ||||||||||| |||||||| || || ||||||||||| ||||| || ||||| ||    || |||||  ||||||| ||  | ||||||
gtacactacacacaccacgcaattgccaaatcgccgccttcttttttttctttcctttttttggctgttctcttaccagatcattcctacctacctactccgatcctaccatttcttgcctgtgatctcagGATACTTGTGTATGAGTACGTGGACAATGGCAACTTGGAGCAGTGGCTTCATGGCGACGTTGGACCGGTTAGCCCTCTGTCTTGGGACATCAGGATGAAC

upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g34430.1 (Oryza sativa), 3'ss of exon 2
----------gtac-tcttcatttcttactttcctctttaattaaccaaaattgcttccttttttttttctttgattattat-tggtcctg--cagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC
          | |  |   ||||  ||  |  |||  || | |  | |||         ||  |  | |   || |  |||| |||  |||  ||| |||||||| |||||||| || ||||| || ||  ||||||||||||| |||||||| ||||| |||   || |||||  | |||||     |  |||| 
gtattttcttgcatgtgcacattatttggtaaccttgttgaattgcaaaatcaaaaggtttgataatgtaaatggtgtttatgtggctctgaccagGATGCTTGTGTATGAGTATGTCGACAACGGGAACCTAGAGCAGTGGCTCCATGGGGAAGTTGGACCTGTAAGCCCTCTTTCGTGGGATTCCAGGGTGAAG

upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G040964_T01 (Zea mays), 3'ss of exon 2
------------------gtactcttcatttcttactttcctctttaattaac-caaaattgcttccttttttttttctttgattattattggtcctgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC
                  || |    || || ||  |  | | |||   | |  ||| | |  |     | ||  |||| || || || |        ||| |||||||| |||||||| ||||| ||||| || ||||| || |||||||| ||||||||||||||  | || |||||  | |||||     | ||||| 
gtatgtcttgtcaggtgtgtgcaaaccacttgtt--tcgcttgtttggctgatacaatactaatgtagatgttggttctgtgtttcttgt--------cagGATGCTTGTATATGAGTATGTTGATAATGGGAACTTAGAACAATGGCTGCACGGGGATGTTGGGCCCAGAAGCCCTCTCGCCTGGGATGACAGGATGAAG

upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G050861_T01 (Zea mays), 3'ss of exon 2
------------gtactcttcatttcttactttcctctttaatt-----aaccaa--aattgcttccttttttttttctttgattattattggtcc--------tgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC
             |   |   |  | |  |||   |  | || |     ||||||  | ||  |  |||| |  |   ||| ||| |   |||| |        | ||| |||||||| |||||||||||| | ||||| || || ||||| ||||| |||||||||||||| |||   || ||||| || ||||| ||  ||||||| 
gtatcttcttgtatggacaatagctttagcttatattgtgaaattatagaaccaaggagtttgtagctttatcataaatttcattgtatatggttcttttccattccagGATGCTTGTGTATGAGTACGTTAATAATGGAAACTTGGAGCAATGGCTCCATGGGGATGTTGGCCCTGTGAGCCCTCTTACATGGGATATCAGAATGAAG

upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0031g00480.t01 (Vitis vinifera), 3'ss of exon 2
--------------------------------------------------------------------------------------------gtactcttcatttcttactttcctctttaa--ttaaccaaaattgcttccttttttttttctttgat----tattattggtcc-------tgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC
                                                                                            ||  | || | || ||  ||||||   |    |||  ||  ||  ||||      | |     ||||    |||  ||| | |       || || |||||||| |||||||| ||  | ||||| ||||| ||||||||||| ||||| ||||| |||||| | |||||||| |||||||| ||||||||||| 
gtactttgttattgtctattgcttaatcctgcttgattgtatttgaactgcaaacaagaatatcttattaattccccattgaaaatgattttgtgttgtttaattttt-ttttcctggctggccttatacatgatatcttcaacagatatgctgatgatgtcctatccttgtttcaatctgttgtagGATGCTTGTGTATGAGTATGTAAATAATGGGAATTTGGAGCAGTGGCTTCATGGTGATGTAGGGCCTCGAAGTCCTCTTACTTGGGAGATTCGAATGAAT

upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S568_2V6.1 (Physcomitrella patens), 3'ss of exon 3
---------gtactcttcatttcttactttcctctttaattaaccaaaattgcttcctttt----ttttttctttgattattattggtcctgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC
          || |||||    ||    ||  | | |    | |  || |  ||| |   |    |  |  ||| |  | |  | | |  || || |||||||| || |||||||| |||||||| ||| | ||||||||||| |||||   | |    |     |   | ||  | ||||||  ||| |||   
gtgaagcatttattcttcccacctggagtttttgtgtg-ccagcacaattctcttacacgtgcaatgctaacttcgtctctcgtggcttttgtagGATGCTTGTGTACGAGTACGTGGACAATGGGAATCTGGAGCAGTGGCTACATGGACCTCTGTCACAAACAAACACACTTCCATGGGAAGCTCGCATGCGG

upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S358_6V6.1 (Physcomitrella patens), 3'ss of exon 2
------gtactcttcatttcttactttcctctttaattaac--caaaattgcttcctttttttttt---ctttgattattattggtcctgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAG-TCCTCTAACTTGGGAAATTCGAATGAAC
      ||  ||     ||| | |     |  ||   |     |  |  | |||  | || ||| |   | | | || |  | | |  ||||| |||||||| || |||||||| || ||||| || || |||||||||||||||||   |  ||  ||   ||  | | ||  | ||||||   || |||   
gtgaatgtcatcccttcttcctgcccagtttgttgtgtggtggcgcagctccttgatgttctttgttgacctcgtttctggtggctgttgcagGATGCTTGTGTACGAGTACGTGGATAATGGAAACTTGGAGCAGTGGCTGCATGGACCT-CTGTCCCAAACAAATACACTTCCATGGGAAGCCCGCATGCGG

upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ27863 (Selaginella moellendorffii), 3'ss of exon 3
gtactcttcatttcttactttcctctttaattaaccaaaattgcttccttttttttttctttgattattattgg-tcctgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC
                              |    | || |  | |       ||||||  |    || |     | || ||| ||||| || ||||||||||| |||||||||||| | ||||||||||| || ||    |       |  ||   ||| ||| |||||  || | ||||| 
-----------------------------gtacgtcgaattctcatgaaagagtttttcactttggatgacgaacttctacagGATGCTGGTATATGAGTACGTAGACAATGGTAATCTGGAGCAGTGGCTTCACGGCCCAGCCTCCATTCTCAACTCTCCAACATGGGAGGTTAGGATGAAA

upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ36811 (Selaginella moellendorffii), 3'ss of exon 3
gtactcttcatttcttactttcctctttaattaaccaaaattgcttccttttttttttctttgattattattgg-tcctgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC
                              |    | || |  | |      |||||||  |    || |     | || ||| ||||| || ||||||||||| |||||||||||| | ||||||||||| || ||    |       |  ||   ||| ||| |||||| |||| ||||| 
-----------------------------gtacgtcgaattctcgtgaaagattttttcactttggatgacgaacttctacagGATGCTGGTATATGAGTACGTAGACAATGGTAATCTGGAGCAGTGGCTTCACGGCCCAGCCTCCATTCTCAACTCTCCAACATGGGAAGTTCGGATGAAA

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|192323263|gb|FK015269.1|FK015269
EST:     CACAAGAATTTAGTCAGGTTGCTTGGTTATTGTGCTGAAGGAGCTCATAG                         AATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCA
genomic: CACAAGAATTTAGTCAGGTTGCTTGGTTATTGTGCTGAAGGAGCTCATAGgtactcttca ... ggtcctgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattaaccaaaattgcttccttttttttttctttgattattattggtcctgcagAATGCTTGTTTATGAGTACGTTGACAATGGTAATTTAGAGCAGTGGCTGCATGGGGATGTTGGGCCTTGCAGTCCTCTAACTTGGGAAATTCGAATGAAC
                 ttccttttttttttct  TA-rich tract