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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgcacacgtatggagttataagcatttctatttgttttgttttgtttttgtggttgactaattatctgtacatctttacgcttagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTAT

Basic information

species Glycine max
transcript GLYMA03G40440.3
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 8
gtaa-tgcacacgtatggagttataagcatttctatttgttttgtt----ttgtttttgtggttgacta---attatctgtacatctttacgctt-------agGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTAT
||||   ||||  | |    |   || ||| ||  | | |  ||||    |   |  ||||||    |    || ||   ||||| |||    ||       || || |||||| |||| |||||| | ||||| ||||||||||| || ||||| ||||||||||||||||| || ||||| || |||||| ||||||| || 
gtaaacacacagctctaacatctcaaccatctccctctctcatgttagcataaatgctgtggtaagtttgacatcatagatacatatttttatttactttgcagACTATGGGATCTAGGACAGCAGCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTAC

upper sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 8
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatgcacacgtatggagttataagcatttctatttgttttgttttgtttttgtggttgactaattatctgtacatctttacgcttagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTAT
     |      | |    | |  || |  |   | || |  | |   |  ||   |||  |||| |   | || ||  | | | |||| || |||||| ||||||||||| ||||| | ||| | ||||| || |||||||||||||||||||| || ||  ||| |||| |||||||||||||||||
-----gtctgtatttttcttaactagtacataactatgata-gctgaatcatttcagtt--ctaactggttctaaat--tcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT

upper sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 8
-----gtaatgcacacgtatggagttataagcatttctatttgttttgttttgttttt---gtggttgactaat-tatctgtacatctttacgctt---agGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTAT
     | | |  | |  | |   ||| ||     || || ||  |   ||| ||  ||   ||||||||  ||  | |   |   |||| ||  ||   ||||| |||||| | |||||||||||||| |||||||| ||||| || |||||||||||||| |||||||| || ||||||||| ||||||| |||||||||
atcacgcattcaatatatgtttcgtt-tatttccttataattaatccttttagtgcttcatgtggttgatcaacctgtacatctctcttcacatttcacagGCTATGGGATCTTGGTCAGCAGAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTAT

upper sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 8
lower sequence: PP1S28_153V6.1 (Physcomitrella patens), 3'ss of exon 6
gtaatgcacacgtatggagttataa--gcatttctatttgttttgttttgtttttgtggttgactaattatctgta------catcttt---acgcttagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTAT
|||      |  |   |  ||||||  || | |||  ||        | ||    ||  ||  ||| ||||  | |      ||| ||    ||    ||||| |||||  | || || ||  | ||  | ||||||||||| ||||| |  |||||||||||||| || || ||||| ||| |||| |||||||| |||
gtatgagctagttgccggtttataattgcttatctgattcgaccacctagtaagagttcttttctacttatgagaaatctctcattttctgcacatacagGCTCTGGGACTTGGGGCAACAACGTTGCATTCATTCTTATGCGGTTCACATTGATTCTGTTTGGGCCCTTGCAAGCACGCCATCATTCAGTCATGTGTAT

upper sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 8
lower sequence: PP1S69_10V6.1 (Physcomitrella patens), 3'ss of exon 8
-----gtaatgcacacgtatggagttataagcatttctatttgttttgttt-tgtttttgtggttgactaattatctgtac---atctttacgct---tagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTAT
     |||| |   |  |     |||  || ||||  |  | ||  || || |  ||||       ||| ||||   || |   || || |   |    |||||||||||| |||| || ||  | ||  | ||||||||||||||||||||||||||||| ||||| || || ||||| ||  | || ||||| || |||
atttggtaaggttaatattccacgttg-aaacattcttcctcgtagtggttgtaatttttcttcctactcattagaagtcccttattttcataatatgcagGCTTTGGGATTTAGGACAACAACGCTGCATTCATTCTTATGCAGTTCATACAGATTCTGTCTGGGCTCTTGCAAGCACGCCTTCCTTCAGTCACGTGTAT

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|7924456|gb|AW830482.1|AW830482
EST:     ATATTGTTTATCAGGATCTTCAGACTCTATGATAAG                         GCTGTGGGATATACGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATAC
genomic: ATATTGTTTATCAGGATCTTCAGACTCTATGATAAGgtaatgcaca ... ttacgcttagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttttgttttgtttttgtggttgactaattatctgtacatctttacgcttagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTAT
                         gactaat  putative branch site (score: 2)
                                        catcttt  putative PPT
     tttgttttgttttt  TA-rich tract