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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactaattattgtttggaagttctaggtttcattcatgcatggtgtggtttgagtcttgaaagtattagatgtcatgatctgattatttgtggtctcagccttggcagtgttatgaatcacaatcttattgttttttaccttcatatcctgtagGTGGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTTCTATTCTATTCCACTACCATTTTTGAATCTGCTG

Basic information

species Vitis vinifera
transcript Vv18s0001g12560.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 10
gtactaattattgtttggaagttctaggtttcattcatgcatggtgtggtttgagtcttgaaagtattagatgtcatgatctgattatttgtggtctcagccttggcagtgttatgaatcacaatcttattgttttttacc--ttcatatcctgtagGTGGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTTCTATTCTATTCCACTACCATTTTTGAATCTGCTG
                        ||  | | ||  ||  ||   |     | ||| |  ||| | | |  || | |     | |   ||| |   | |   |||||| ||      || | |  || |    |||||||    ||||||||||||| | ||||||||  | |||||| ||||||||||   |||||| ||||||||||| || ||||||| ||| || |||  |  |||||
-----------------------gtatttcttatctat-tatctagaatcattagtttcaaaaat-tcatctgccttatggagttggattgcgtaataaa--ttggcaatgacc---attagagcctaaccactttttactaactcatatcctgtagATTGGAATTGGACTGCTTATTTTGCAACAGCTTTCTGGAATTAATGGTGTTCTTTTTTATTCCAGTACAATCTTTCGAAGTGCTG

upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G36950.1 (Glycine max), 3'ss of exon 10
gtactaattattgtttggaagttctaggtttcattcatgcatggtgtgg---tttgagtcttgaaagtattagatgtcatgatctgattatttgtggtctcagccttggcagtg-ttatgaatcacaatcttattgttttttaccttcatatcctgtagGTGGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTTCTATTCTATTCCACTACCATTTTTGAATCTGCTG
                          ||| |   | ||  ||  | | |     | ||| |   || |   |  ||   |     | | | ||| |   | |   |||||| ||  ||| |    | | |   || ||  | ||    ||||||||||| | ||||||||  | || ||| ||||||||||   |||||| ||||||||||| || ||||||| |||||| |||  |  |||| 
--------------------------ggtattccttatctattatctagaatcattagtttcagaaat-ccatctgctttatggagttgaattgcgtaataaa--ttggcaatgactattagagcctaaccactttttactaactcatatatcctgtaGATTGGAATTGGACTGCTAATTTTGCAACAGCTTTCTGGAATTAATGGTGTTCTTTTTTATTCCAGTACCATCTTTCGAAATGCT-

upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G75220.1 (Arabidopsis thaliana), 3'ss of exon 10
gtactaattattgtttggaagttctaggtttcattcatgcatggtgtggtttgagtcttgaaagtattagatgtcatgatctg-attatttgtggtctcagccttggcagtgttatgaatcacaatcttattgttttttaccttcatatcctgtagGTGGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTTCTATTCTATTCCACTACCATTTTTGAATCTGCTG
                                                          |  || ||||  || || |    || | |||   | |||| | | |  | |   ||||   | | | |  | || | |  |   |   | |     |||| || || ||||| ||| | || ||||| ||  ||||||| |||||||| ||||||||||||| ||| || ||||||||||| |
---------------------------------------------------------gtacaaatattgaatatctttccttggaatatactttgtct-atcataagaaacattatct-taaaacttcttttttgtcgtgtgtgtgtgtgtaacagGTTGGTATAGGGTTGCTTGTACTTCAACAACTTGGTGGAATTAATGGTGTCCTATTCTATTCCAGTACAATATTTGAATCTGCAG

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|349811010|gb|FQ405998.1|FQ405998
EST:     GAAGATATTGGTATCCTTTAATG                         GTAGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTT
genomic: GAAGATATTGGTATCCTTTAATGgtactaatta ... tatcctgtagGTGGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTT
EST: gi|33404093|gb|CF209720.1|CF209720
EST:     CAATCCGATTTGCAGAACTCAAACAAAGAAGATATTGGTATCCTTTAATG                         GTAGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTT
genomic: CAATCCGATTTGCAGAACTCAAACAAAGAAGATATTGGTATCCTTTAATGgtactaatta ... tatcctgtagGTGGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTT
EST: gi|351014223|gb|FQ434812.1|FQ434812
EST:     GAAGATATTGGTATCCTTTAATG                         GTAGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTT
genomic: GAAGATATTGGTATCCTTTAATGgtactaatta ... tatcctgtagGTGGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttggcagtgttatgaatcacaatcttattgttttttaccttcatatcctgtagGTGGGAATTGGGTTACTTATTCTGCAACAGCTCAGTGGAATCAATGGTGTTCTATTCTATTCCACTACCATTTTTGAATCTGCTG
                                ttttttaccttcat  CT-rich tract
                      aatcttattgtttttt  TA-rich tract