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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtgtaaattctgatagataaagggtctcttaagctgtttcatattgttcaactttgactttgtttgagcactgatcagctgctattgagtttctttcattttcaaccgttctgcagagcactagtatataacgatgttctttttgttcttatttaatgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGTGGTGTATCTGTTCCTGCACTTGACAAAGATATACTCTGGGAATTCCAGC

Basic information

species Vitis vinifera
transcript Vv09s0054g00890.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 4
gttcgtgtaaattctgatagataaagggtctcttaagctgtttcatattgttcaactttgactttgtttgagcactgatcagctgctattgagtttctttcattttcaaccgttctgcagagcactagtatataacgatgttctttttgttcttatttaatgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGTGGTGTATCTGTTCCTGCACTTGACAAAGATATACTCTGGGAATTCCAGC
                                                      ||||  | ||    |||     ||  |  | |  ||    || ||| |  | |   |  ||    |     ||     |  | |||| ||||||  | |  | |  ||||| | ||| |||| || ||||| |  | |||||| ||||| |||||||| |||||||| || |||||||| ||||||||||||    | ||| | ||  |||
----------------------------------------------------gtacttcaagttg---tgaatgtggagtaatttcattta---ttttttaagctccttgcactcctt-gtctgttaactcttgtc-atgtcctttttcctatcgtgtt-tgcagCGCCCTCTGAAAACTATTGCTATTAAATCTGGAGATGTGTACATTCCGCGTGGTGTCTCAGTTCCTGCCCTTGACAAAGATGCTTTGTGGCATTTTAAGC

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 4
gttcgtgtaaattctgatagataaagggtctcttaagctgtttcatattgttcaactttgactttgtttgagcactgatcagctgctattgagtttctttcattttcaaccgttctgcagagcactagtatataacgatgttctttttgttcttatttaatgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGTGGTGTATCTGTTCCTGCACTTGACAAAGATATACTCTGGGAATTCCAGC
                                                                     | |  |||| ||    | |  | | ||  ||   || |  || ||      |    | || ||| |   |           | |||| |  ||||| | ||| | || ||||| || |  |  || || ||||| || |||||||||||||| || |||||||| |||||||||||| || | |||||||| ||||
---------------------------------------------------------------------gtgtgctgaaca----cgacagggcttactt---ttgcggccatttacattattttttgtctattatcctcactcgccctctattatgtt-tgcagCGACCTCTAAAAACCATCGCTATTAAGTCAGGAGATGTGTATATTCCTCGTGGTGTTTCAGTTCCTGCCCTTGACAAAGATGTATTGTGGGAATTTCAGC

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 1
gttcgtgtaaattctgatagataaagggtctcttaagctgtttcatattgttcaactttgactttgtttgagcactgatcagctgctattgagtttctttcattttcaaccgttctgcagagcactagtatataacgatgttctttttgttcttatttaa----tgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGTGGTGTATCTGTTCCTGCACTTGACAAAGATATACTCTGGGAATTCCAGC
                                                                     | || ||||     ||  |  | |||  |||     ||| |   | |         |  | | | |   ||  |||     || | | |      ||||| | ||| | || |||||||| |  |  || || ||||| || |||||||||||||| || |||||||| ||||||||||||  | | |||||||| ||||
---------------------------------------------------------------------gtgcgctgaa----tgtgacagggttcattttgcggtcatctacttttgttcttgtttttcttttaatttgcccttacctctcctctattgtgtttgcagCGCCCTCTAAAAACCATTGCCATTAAGTCAGGAGATGTGTATATTCCTCGTGGTGTTTCAGTTCCTGCCCTTGACAAAGATGCATTATGGGAATTTCAGC

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 4
gttcgtgtaaattctgatagataaagggtctcttaagctgtttcatattgttcaactttgactttgtttgagcactgatcagctgctattgagtttctttcattttcaaccgttctgcagagcactagtatataacgatgttctttttgttcttatttaatgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGTGGTGTATCTGTTCCTGCACTTGACAAAGATATACTCTGGGAATTCCAGC
                                                 ||    ||||  | |  |  || || | |    || | |||   || |||||   |||  |  |||     | |   | |||            | ||| | || |       |||||||||||||| || ||||| |||| ||||||||||||||| |||||||||||||| |||||||| ||||| |||||||||| ||| |||||||| || |
-------------------------------------------------gtgtgccttttccctaatcagaacattca----cttcaattcttttcctttc---ttcgcctcttccttctaacttaaatat-----------ttctttatcctga-------cagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 4
gttcgtgtaaattctgatagataaagggtctcttaagctgtttcatattgttcaactttgactttgtttgagcactg-atcagctgctattgagtttctttcattttcaaccgttctgcagagcactagtatataacgatgttctttttgttcttatttaatgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGTGGTGTATCTGTTCCTGCACTTGACAAAGATATACTCTGGGAATTCCAGC
                                                         |    |||   | |||||   ||   || | |||   || |||||   |||  || ||||    | |   | |||            | | | | || |       |||||||||||||| || ||||| |||  ||||||||||||||| |||||||||||||| |||||||| ||||| |||||||||| ||| |||||||| || |
------------------------------------------------------gtgtgccttttccctaagcacaacattcacttcaattcttttcctttc---ttccccccttctttctaacttaaatat-----------ttctatatcctga-------cagAGGCCTTTGAAAACTATTGCTAAACGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC

upper sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G78900.1 (Arabidopsis thaliana), 3'ss of exon 5
gttcgtgtaaattctgatagataaagggtctcttaagctgtttcatattgttcaactttgactttgtttgagcactgatcagctgctattgagtttctttcattttcaaccgttctgcagagcactagtatataacgatgttctttttgttcttatttaatgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGTGGTGTATCTGTTCCTGCACTTGACAAAGATATACTCTGGGAATTCCAGC
                                                        ||    |   |||     ||    ||     |||   |||  ||  || | |  |||| |     ||  |  ||     |  || | |  || |  |||  |    ||||||||||||||||| ||||||| |||||| |||||||| ||||||||||| ||||| |||||||| || ||||||||||||   || ||||| |||||||
-------------------------------------------------------gttcagttggatttataatcttgctagacatgattttttttactt--ttatgattcgttttatgtggc-ttcttacgattctttggtttcatt-tctttaaatgtcacagAGGCCTTTGAAGACTATTGCAAGAATATCCGGTGATGTGTACATTCCTCGGGGTGTGTCTGTTCCAGCTCTTGACAAAGATTGTCTTTGGGAGTTCCAGC

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|161718002|gb|FC067562.1|FC067562
EST:     CGGTTGAGCTGGGTCCTGGAATTTTGGGAAATATATTTGATGGCATTCAG                         AGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGT
genomic: CGGTGGAGCTGGGTCCTGGAATTTTGGGAAATATATTTGATGGCATTCAGgttcgtgtaa ... tttaatgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttctgcagagcactagtatataacgatgttctttttgttcttatttaatgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGTGGTGTATCTGTTCCTGCACTTGACAAAGATATACTCTGGGAATTCCAGC
                              ttctttttgttcttat  CT-rich tract
                              ttctttttgttcttat  TA-rich tract