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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatgctagttggatagccttacagtttctatcgttttgctttatttttgtggtcatcactctgcttttccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT

Basic information

species Vitis vinifera
transcript Vv07s0005g00880.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 3'ss of exon 10
gtatgtatgctagttggatagccttacagtttctatcgttttgctttatttttgtgg-------tcatcactctgcttttccttg-ctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT
||  |||| | |||    |||||||       |     | || || |||| || |||       |  ||| | |   |    |   | ||| || || || ||||| ||||||||||| || || |||||||| ||||| || ||||| |||||||||
gttagtattccagtcttttagccttttgagagcacaaatatttctctattcttctggggagatatagtcaatatatctaatatgatcacagCGGCCCCCGATGTGGACTTGGTGAACTTATCCTACCTGAAAATGAGCCTGGGAGCAGCATTATGCCT

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 10
gtatgtatgctagttggatagcctt-acagtttctatcgttttgctttatttttgtggtcatcactctgcttttccttg-----ctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT
||   ||| | | |    ||   || | |   | |    || |     ||| | | ||    ||||     |||||        |  |||||||| || ||||| ||||||||||| || || || ||||| ||||| || ||||| |||||||||
gtcgttattccaatcttctattttttataacatatgattttctctagcattctgggggcatgcactaaatatttccaacacaatcatagTGGTCCTCGGTGTGGTCTTGGTGAACTAATCCTACCAGAAAATGAGCCTGGGAGCAGCATTATGCCT

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 10
gtatgtatgctagttggatagc-----cttacagtttctatcgttttgctttatt--------tttgtggtcatcactctgcttt------tccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT
||| || ||||||||  ||  |      | ||   ||   |  |  || |  ||         ||| |  ||||   | | |||       ||||     ||||||||||| || || ||||||||||||||||||||||||||||| ||||| |||||||| ||||||
gtaggt-tgctagttatatgacaccgattgacgaatttctttttcatgttcaatagaaaattatttatattcatgggttttcttaatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCT

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G02040.1 (Glycine max), 3'ss of exon 10
--------------gtatgtatgctagtt---ggatagccttacagtttc---tatcgttttgctttatttttgtggtcatcactctgcttttccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT
               |||| |  |   ||   | || || ||  | | |    ||     ||  ||   ||   ||||  ||  |     | ||||     ||||||||||| || || ||||||||||||||||||||||||||||| ||||| || ||||| ||||||
gtaggttgctaattatatg-acaccgattgacgaattgctttctaatgttcaataaaaaattatttatattcattggttttcttttatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGAAGTAGTATCATGCCT

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G01930.1 (Glycine max), 3'ss of exon 10
--------------gtatg---tatgctagttggatagccttacagtttctatcgttttgct-----ttatttttgtggtc--atcactctgc------ttttccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT
               ||||   |   |||  |  || || ||    ||| ||  |||          |||||  |    |   || | | |||       | ||||     ||||||||||| || || ||||| || |||||||||||||||||||| ||||| |||||||||||||||
gtaggttgctagtaatatggcatcaactaacta-attgctttttcttttttaatgttcaatagaaaattattcataatatttaatgagtttgcgtaatgctatcctattatagTGGTCCACGCTGCGGTCTTGGGGAGCTCATTCTTCCTGAAAACGAACCAGGAAGCAGTATTATGCCT

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatgtatgctagttggatagccttacagtttctatcgttttgctttatttttgtggtcatcactctgcttttccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT
||||| || ||| |      |  |||   |||   |  |||  | |    | |||  | ||   |   | | || ||    ||||| ||| | ||||| |||||||||||  | || |||||||| |||||||| |||||||| ||||||
gtatggat-ctaatctatagggattatttttttctttctttaacatgcactatgtccttatggtttaccatgtctttatatagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G50950.2 (Arabidopsis thaliana), 3'ss of exon 10
-------------------------------------------gtatgtatgctagttggata-gcctt-----acagtttctatcgttttgc----tttatttttgtggt-------catcactctgctt-ttccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT
                                           ||   |||| || ||  | | | |||     | | ||| ||| ||  | |    | |||| || || |       |||  || |   | | | ||    ||||||||| | ||||| |||||||||||   ||| ||||| || || ||||| |||||||||||||||
gtacgttatctaatattttttaatctttcttcaagatgtacatgttcttatgataatttaacatgtctttatatatactttatatagTGGTCCAAGATGTATTCTTATGATATTTTAACATGTCTTTATATATACTTTATATAGTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCT

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|352794271|gb|FQ479513.1|FQ479513
EST:     GTTGCTACTTCCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAG                         TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
genomic: GTTGCTACTTCCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAGgtatgtatgc ... ccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
EST: gi|110363110|gb|EC926680.1|EC926680
EST:     GTTGCTACTTCCGTGATGAAGATTGCTAATGATATACGCTTATTAGGAAG                         TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
genomic: GTTGCTACTTCCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAGgtatgtatgc ... ccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
EST: gi|110407161|gb|EC972758.1|EC972758
EST:     CTTCCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAG                         TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
genomic: CTTCCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAGgtatgtatgc ... ccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
EST: gi|110361036|gb|EC924487.1|EC924487
EST:     GTTGCTACTTCCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAG                         TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
genomic: GTTGCTACTTCCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAGgtatgtatgc ... ccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
EST: gi|110698892|gb|EE076910.1|EE076910
EST:     CCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAG                         TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
genomic: CCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAGgtatgtatgc ... ccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
EST: gi|351045827|gb|FQ441012.1|FQ441012
EST:     GTTGCTACTTCCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAG                         TGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG
genomic: GTTGCTACTTCCCTGATGAAGATTGCTAATGATATACGCTTATTAGGAAGgtatgtatgc ... ccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttctatcgttttgctttatttttgtggtcatcactctgcttttccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT
                                tcactctgcttttcct  CT-rich tract
          ttttgctttattttt  TA-rich tract