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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtacttcaatcatcttatgcttcttattaagtgcatcaagaaaaagttcattttattgtttttatacgttccacattgagtcagatagatactttggttgaattatcagtatcaactgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCACTCCAGTCTCTAAGTGCAATGATGCTACAGTTG

Basic information

species Glycine max
transcript GLYMA03G40360.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 5
gtaatgtacttcaatcatcttatgcttcttattaagtgcatcaagaaaaagttcattttattgtttttatacgttccacattgagtcagatagatactttggttgaattatcagtatcaactgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCACTCCAGTCTCTAAGTGCAATGATGCTACAGTTG
                                                                        ||     ||  ||     ||     ||  || ||| ||    | | | |  |    |   |||  || |  |||  |  |    |||| | ||||||||||||||||||||||||||||||||||| ||||| |||||||||||  | ||  || | ||  |||| ||  | || |     ||||| | ||  |
------------------------------------------------------------------------gtatattatccagc--actatgcttttctgtggaactactcattttatcccttttgtt--ttacatgttttttt--ttattctctgcaatgtagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGTGAGGTCTTTATATGGGACCTTGATTCTTCTCTTGCTCCTGTGGCCAAATCTGTAGATGCAAAAGAGG

upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G167999_T01 (Zea mays), 3'ss of exon 5
gtaatgtacttcaatcatcttatgcttcttattaagtgcatcaagaaaaagttcattttattgtttttatacgttccacattgagtcagatagatactttggttgaattatcagtatcaactgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCACTCCAGTCTCTAAGTGCAATGATGCTACAGTTG
                                                                                   | |   ||  | ||||  | |    | |  ||||     | |   | |||| ||| |  ||||  | |  |  || ||| |||||||||||||| ||||||||||| ||||| || |||||||| || |||||  | || ||||| ||  |||| ||  | || |     ||||| | ||  |
---------------------------------------------------------------------------------gtaatattatccacacttgtgcttttctgt-ggtatttttagcctt-ttcatttttt-acagtttttttgcctt-tgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG

upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaatgtact-tcaatcatcttatgcttcttattaagtgcatcaagaaaaagttcattttattgtttttatacgttccacattgagtcagatagatactttggttgaattatcagtatcaactgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCACTCCAGTCTCTAAGTGCAATGATGCTACAGTTG
||||| |    |   ||||  | |  |||||  ||  | |  |   ||||| || |||    || |  |  | |||     |||||  | |||  | |||                    | ||||  || |      ||||  | |  |  | |||    |||||||  ||| ||||||| |||||||||||||| ||||||||||||||||||||||| || |||||  |  | |||||  | ||    ||||| ||||  |  |
gtaatttctcatttgtcatgct-tttttctttatagttcccactgaaaaaaattgattggtatggtggtgcaagtt-----ttgagg-atatatgtgcttc-----------------tcattgtcgcattc------tgattctatcttgatttcacaacttttagAATAATGTTGTTGCATCTGGTGGCCTTGGTGGGGAGGTTTTTATATGGGATATTGAAGCTGCTTTGTCACCAGTTACCAAACCTAATGACGCTAATGAAG

upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
gtaatgtactt--caatcatcttatgcttcttattaagtgcatcaagaaaaagttcattttattgt-------ttttatacgttccacattgagtcagatag-atac-tttggttgaattatcagtatcaactgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCACTCCAGTCTCTAAGTGCAATGATGCTACAGTTG
||||| |  ||  |||   | | |||    ||||| | |||||  |  ||  |||| | | | |||       || | || ||| ||  || | |   || |   |  |||||  | ||| |    ||    ||||     |||| | ||||| ||| ||||||||||||||||||||||||| |||||||||||||||||||||| |||||||||||| |||||||| | || ||||| || ||||||||||| ||||  | |||||| |  |  |
gtaatttctttgtcaaaattttcatggaa-ttatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcattgt-gtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG

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|213617649|gb|DB967207.1|DB967207
EST:     TCCGACAACACTCTGACTATGTTACTTGCCTTGCAGCAGCAGGAAAAAAT                         AGCAATATTGTTGCCTCTGGTGGCCTTGGGCGGG-AGGTTTTTATATGGGA
genomic: TCCGACAACACTCTGACTATGTTACTTGCCTTGCAGCAGCAGGAAAAAATgtaatgtact ... tgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGG-CGGGGAGGTTTTTATATGGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtatcaactgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCACTCCAGTCTCTAAGTGCAATGATGCTACAGTTG
                               gtttaat  putative branch site (score: 4)
                    attatttgat  TA-rich tract