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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatgcagcgtttggatgtcttacatgatgttacgagtgatttgtttgttctccttgaacactagtgctgctgtctaccatacatggatgtgcatcagtaaatagatgcttgaaatcaagtcacatattaaccaggactgtgttcatttgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCC

Basic information

species Glycine max
transcript GLYMA19G35140.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G35140.3 (Glycine max), 3'ss of exon 1
lower sequence: AT1G04080.2 (Arabidopsis thaliana), 3'ss of exon 1
gtaaatgcagcgtttggatgtcttacatgatgttacgagtgatttgtttgttctccttgaacactagtgctgctgtctaccatacatggatgtgcatcagtaaatagatgcttgaaatcaagtcacatattaaccaggactgtgttcatttgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCC
|||||||||| ||||||  || | |    ||   | |||||| |  ||  |||||| |  | ||| ||| |  | ||||   |   ||||| ||  || ||       |  || |  |||  | ||||  |    |  |   || |     ||| |||||||||||||||||  || | ||| |||||||| |||| |||||| | |||  | ||||| ||||||||||| ||||||||||||||||||||||||  |
gtaaatgcagtgtttggcagtatcatgc-attcaaagagtgaatcctt--ttctccataga-actcgtgtttgtctctat--tgattggatatg--tctgtt------tctttcagctcatatgacattctttttactataatgct-----gttgcagGCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCCGTTGTGGGACAAATACATTGAGTATGAGTACATGCAGCAGGACTGGAGC

upper sequence: GLYMA19G35140.3 (Glycine max), 3'ss of exon 1
lower sequence: AT1G04080.3 (Arabidopsis thaliana), 3'ss of exon 4
gtaaatgcagcgtttggatgtcttacatgatgttacgagtgatttgtttgttctccttgaacactagtgctgctgtctaccatacatggatgtgcatcagtaaatagatgcttgaaatcaagtcacatattaaccaggactgtgttcatttgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCC
                                        || |  ||  |||||| |  | ||| ||| |  | ||||   |   ||||| ||  || ||       |  || |  |||  | ||||  |    |  |   || |     ||| |||||||||||||||||  || | ||| |||||||| |||| |||||| | |||  | ||||| ||||||||||| ||||||||||||||||||||||||  |
----------------------------------------gaatcctt--ttctccataga-actcgtgtttgtctctat--tgattggatatg--tctgtt------tctttcagctcatatgacattctttttactataatgct-----gttgcagGCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCCGTTGTGGGACAAATACATTGAGTATGAGTACATGCAGCAGGACTGGAGC

upper sequence: GLYMA19G35140.3 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0005g04280.t01 (Vitis vinifera), 3'ss of exon 4
gtaaatgcagcgtttggatgtcttacatgatgttacgagtgatttgtttgttctccttgaacactagtgctgctgtctaccatacatggatgtgcat-cagtaaatagatgcttgaaatcaagtcacatattaaccaggactgtgttcatt----tgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCC
                                                            ||| |||| | |||||||  ||| ||||||||| | | ||     || |    |||  | | |     | | |    |  || |  |  ||    ||||||||||| |||||||| ||| |||||||||| ||||||||||| || || |  ||||| |||||||||| ||| |||||||||||    |||||||| ||| | 
------------------------------------------------------------acattagttccgctgtctcgcattcatggatgttcttgcaacggctaaag---tgatgttatgatgtgtgtcataatgatctctcctttttatggtgtttcagGCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCCCCTTTGGGATAAATTCATAGAATATGAGTATTCACAGCAGGAGTGGTCG

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|7589206|gb|AW704985.1|AW704985
EST:     CCTCTATGACTGCTCCATTTCTGAGACATAGTATGATTTATTGCAGGAAG                         GCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCC
genomic: CCTCTATGACTGCTCCATTTCTGAGACATAGTATGATTTATTGCAGGAAGgtaaatgcag ... tttgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagatgcttgaaatcaagtcacatattaaccaggactgtgttcatttgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCC
                        tattaac  putative branch site (score: 1)
                                             tttgtttc  putative PPT
                     acatattaa  TA-rich tract