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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatcaattaactttgtttccctttctgtcagggtcttatacatgtgttgtttactactgtcttggtttggagaagcttcagcattattacatttacatgctgtttcagGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGACAGGAATCTTGCTGAGAATGTCCTCAAGGCCATTCCAAAGATTGATAAAA

Basic information

species Glycine max
transcript GLYMA11G19410.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19410.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g19190.1 (Oryza sativa), 3'ss of exon 2
gtaaatcaattaactttgtttccctttctgtcagggtcttatacatgtgttgtttactactgtcttggtttggagaagcttcagcattattacatttacatgctgtttcagGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGACAGGAATCTTGCTGAGAATGTCCTCAAGGCCATTCCAAAGATTGATAAAA
              |||| || |  || | | |   ||||  |   ||       |  ||  | |    |  | ||| |   |||   |||   |    ||     | |||||||| ||||||||||||||||| ||  | |||||||||||| | |||||| ||||| |  ||||| |    || ||||| ||  |    |||   || |
-----------gtatttggttgctattgtttgatattctttcagtggtaagtggcaacacattttccactatgtgaaccacgagctgaattgtttgatgatatcaat-cagGACTCCACCTTTGAGTTTGAGAGGAAAAGGAACAGGCCAGAGCGCTATGACCGGAATGTCACTGAGCAAACACTTAAGGCTATCTCTCTTATTACAAAGA

upper sequence: GLYMA11G19410.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g33050.2 (Oryza sativa), 3'ss of exon 2
gtaaatcaattaactttgtttccctttctgtcagggtcttatacatgtgttgtttactactgtcttggtttggagaagcttcagcattattacatttacatgctgtttcagGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGACAGGAATCTTGCTGAGAATGTCCTCAAGGCCATTCCAAAGATTGATAAAA
    ||    |   | | ||| | ||         ||      ||  | || | | ||     |    ||    |  |  | | |   ||   | |    ||   |  |||||||| ||||||||||||||||| ||| | ||||| |||||| | |||||| ||||| |  |||   |    || ||||| || ||    |||   || |
--gtatttgcttgttctattttcgttcagtattaagtagagagcacattttctatgctgtgaaccactttctatgctg--tgaaccacatctgaatcgtttgaaat--cagGACTCCACCTTTGAGTTTGAGAGGAAGAGGAACAGACCAGAGCGCTATGACCGGAATGTCACTGCACAAACTCTTAAGGCTATCCCTCTTATTACAAAGA

upper sequence: GLYMA11G19410.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0061g01330.t01 (Vitis vinifera), 3'ss of exon 2
gtaaatcaattaacttt--gtttcccttt--ctgtcagggtcttatacatgtgttgtttactactgtcttggt---ttggagaagcttcagcattattacatttacatgctgtttc-------agGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGACAGGAATCTTGCTGAGAATGTCCTCAAGGCCATTCCAAAGATTGATAAAA
||| |  || |||  ||   ||  |||||  |||  |  |||  ||  || |     | | ||  |||  |      |   |    ||||   || ||     |   |  | || |       |||| ||||||||||||||||||||||||||||| ||||||||||||||||| |||||| |||||||||||   || ||||| |||   ||||| |||||| 
gtacacaaactaatcttcaattaaccttttcctgaaacagtcccatttatattcctgtaattatagtcaagaaaaactaatgcgagttcatgttttttctgggtctgtcttattcctttttaaagGATTCAACCTTTGAGTTTGAGAGAAAGCGAAATAGGCCAGAGAGATATGATAGGAATGTTGCTGAGAATACTCTGAAGGCTATTAAGAAGATCGATAAAG

upper sequence: GLYMA11G19410.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g03850.t01 (Vitis vinifera), 3'ss of exon 3
gtaaat-caattaactttgtttccctttctgtcagggtcttatacatgtgttgtt----tactactgt----cttggtttggagaagcttcagcattattacatttacatgctgtttcagGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGACAGGAATCTTGCTGAGAATGTCCTCAAGGCCATTCCAAAGATTGATAAAA
||||||    || | | || ||   ||||| |   | ||||   ||   |||        | | |  |    || |||   ||   | |      ||      ||| |||  | ||  |||| |||||||||||||||||||||||||| || ||||||||||||||||||||||||||||| |||||    || ||||| |||   |||||||| ||| 
gtaaatatggttcattatggttat-tttctcttttgatcttcctcagcagttaccactgcattgccataaaactgggtggtgatctgttcttttctttgcttcttttcatatt-ttctagGATTCAACCTTTGAGTTTGAGAGAAAGCGGAATAGGCCAGAGAGATATGACAGGAATCTTGCAGAGAACACTCTAAAGGCAATTAAGAAGATTGACAAAG

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|8282482|gb|BE020106.1|BE020106
EST:     AAAATGGACAAAGGCATATAGACGAGTGCATGGAAAGGATATGACACAG                         GACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGAC
genomic: AAAATGGACAAAGGCATATAGACGAGTGCATGGAAAGGATATGACACAGgtaaatcaat ... gctgtttcagGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGAC
EST: gi|58017300|gb|CX704042.1|CX704042
EST:     TAAAATGGACAAAGGCATATAGACGAGTGCATGGAAAGGATATGACACAG                         GACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGAC
genomic: TAAAATGGACAAAGGCATATAGACGAGTGCATGGAAAGGATATGACACAGgtaaatcaat ... gctgtttcagGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGAC
EST: gi|16345047|gb|BI970642.1|BI970642
EST:     ATGGACAAAGGCATATAGACGAGTGCATGGAAAGGATATGACACAG                         GACTCAACCTTTGAGNNNGAGAGAANNCGAAACAGGCCAGAGAGATATGAC
genomic: ATGGACAAAGGCATATAGACGAGTGCATGGAAAGGATATGACACAGgtaaatcaat ... gctgtttcagGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGAC
EST: gi|6567332|gb|AW234943.1|AW234943
EST:     TAAAATGGACAAAGGCATATAGACGAGTGCATGGAAAGGATATGACACAG                         GACTCAACCTTTGAGTTTGAGGGAAAGCGAAACAGGCCAGAGAGATATGAC
genomic: TAAAATGGACAAAGGCATATAGACGAGTGCATGGAAAGGATATGACACAGgtaaatcaat ... gctgtttcagGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGAC
EST: gi|6725152|gb|AW309551.1|AW309551
EST:     CATGGAAAGGATATGACACAG                         GACTCAACCTTTGAGTTTTGAGGGAAAGCGANACAGGCCAGAGAGATATGA
genomic: CATGGAAAGGATATGACACAGgtaaatcaat ... gctgtttcagGACTCAACCTTTGAG-TTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctactgtcttggtttggagaagcttcagcattattacatttacatgctgtttcagGACTCAACCTTTGAGTTTGAGAGAAAGCGAAACAGGCCAGAGAGATATGACAGGAATCTTGCTGAGAATGTCCTCAAGGCCATTCCAAAGATTGATAAAA
                                              ctgtttc  CT-rich tract
                             attattacatttacat  TA-rich tract