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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttaccctgtcagattctttcacatgcatatcctgggagaaaaagctcaatatatgtggcaaactccttttacacattggtgtatgtgcttcttttacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAAACCACTTATCTTTTGTCGAACCGAGAGTGATTGTCCAATGGAAAATGGT

Basic information

species Vitis vinifera
transcript Vv00s0225g00090.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g38010.1 (Oryza sativa), 3'ss of exon 4
gttagttaccctgtcagattctttcacatgcatatcctgggagaaaaagctcaatatatgtggcaaactccttttacacattggtgtatgtgcttcttt-------tacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAAACCACTTATCTTTTGTCGAACCGAGAGTGATTGTCCAATGGAAAATGGT
      ||  |     ||||     |||| | | | || |           | ||   ||| || ||   |  |   || |||    |||  ||  | |       || |||||||  |||||| ||||||||||||||||||| | ||| ||| |||| ||||| || ||||| ||| |||| || |||||| | || ||||| ||||||
------taaacaaaaggatttccctacatccttcttctcgtcctcc---tccgattcttgttgcgaaa--caatagaaccttgaaacatgacctgttctagttgaatatagGTGTGCAGGATATTACAGTGATGCTGATGCTCCCAATCGAAGAATTGCCAAACCTCTGATCTTCTGTAGAACTGAAAGTGATAGCCCTATGGAGAATGGT

upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 5
gttagtta--ccctgtcagattctttcacatgcatatcctgggagaaaaagctcaatatatgtggcaaactccttttacacattggtg-tatgtgc-ttctttta------cagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAAACCACTTATCTTTTGTCGAACCGAGAGTGATTGTCCAATGGAAAATGGT
|| || ||  |  |   | | |  ||    |  |||||     | |    |||   | | | |   || |  | | |  | | || |  | ||  | || || ||      |||||||| ||| ||  ||||||||||||||||||| || || |||||||  || || || ||||||||  |||| || |||||| |||| ||||| ||||||
gtaagctaagctttaggaaacttcttttgttttatatctc---atagctggctttgt-tgtcttagaatcatcatatggaaaatgataatgtgaacattgttctaaatcatcagGTGTGCTGGCTACTACAGTGATGCTGATGCTCCCAGCCGCAGACTTGGCAAGCCTCTAATCTTTTGCAGAACTGACAGTGATAGTCCCATGGAGAATGGT

upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g04950.1 (Oryza sativa), 3'ss of exon 4
----gttagttaccctgtcagattctt-tcacatgcatatcctgggagaaaaa-----gctcaatatatgtggcaaactc-------cttttacacattggtgtatgtgcttcttt--tacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAAACCACTTATCTTTTGTCGAACCGAGAGTGATTGTCCAATGGAAAATGGT
    | ||| ||   |||   |||  | |       | |   ||     || |     | |||     ||| |||    |       | |||| ||||   |   | | || |||   ||||||||||  |||||| ||||||||||||||||||| ||| | ||| | || ||||| ||  | || ||| |||| || ||||||   || || || ||||| 
gtaagctagctaatttgtttcatttatgttgttaataaacgttgtatacaacattatcgttcagctcttgttgcaggaacaatagagcctttaaacat-aattccttttctgcttgaatacagGTGTGCAGGATATTACAGTGATGCTGATGCTCCCAGTAGAAGAATCGCCAAACCTCTGGTGTTCTGTAGAACTGAAAGTGATAACCCTATCGAGAATGGC

upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G38990.1 (Glycine max), 3'ss of exon 4
gttagttacc-ctgtcagattctttcacatgcatatcctgggagaaaaagctcaatatatgtggcaaactccttttacacattggtgtatgtgcttcttttacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAAACCACTTATCTTTTGTCGAACCGAGAGTGATTGTCCAATGGAAAATGGT
|||||||||  ||   ||||| ||| |   ||||||  || || |   |  |||     | || |    ||  | || | | | |||    ||   ||| ||  |||||| ||||||||||||||| |||||||||||||| || |||||||| |||||||| ||||||||| | || || ||||| || || ||||||||||| 
gttagttactgcttcaagattatttgattggcatattatgaga-atttatttcagc---tatgtcttgttctatcta-atacttgtggtgttgaaacttgta--gGTGTGCTGGATATCACAGTGAAGCTGATGCTCCTAGCCGGAGACTTGCTAAACCACTAATCTTTTGTAGGACTGAAAGTGACTGCCCTATGGAAAATGGC

upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G04360.1 (Glycine max), 3'ss of exon 4
gttagttaccc-tgtcagattctttcacatgcatatcctgggagaaaaagctcaatatatgtggcaaactccttttacacattggtgtatgtgcttct----tttacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAAACCACTTATCTTTTGTCGAACCGAGAGTGATTGTCCAATGGAAAATGGT
||||||| |   | | ||||  ||| |     |||           || | ||| |  ||       |   ||||| | |  |  ||  || |   ||     ||||||||||||||||||||| ||||| || ||||||||||| ||  | ||||| ||||| || ||||||||| |||| |||||||| || |||||||||||||| 
gttagttgctaatatgagatgatttgaagactatac---------gaaggttcattgaatc--attgatgtctttttctctctaatgcgtgaggagctgaaccttacagGTGTGTTGGATATCATAGTGAAGCGGATGCTCCTAGCCGCCGGCTTGCTAAACCGCTAATCTTTTGTAGAACTGAGAGTGACTGCCCAATGGAAAATGGC

upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G20800.1 (Glycine max), 3'ss of exon 4
gttagttaccctgtcagattctttcacatgcatatcctgggagaaaaagctcaatatatgtggcaaactccttttacacattggtgtatgtgcttcttttacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAAACCACTTATCTTTTGTCGAACCGAGAGTGATTGTCCAATGGAAAATGGT-
 ||||||||    |||   |  ||    || | ||  |  |||||     |  |  |||||  |    ||  | || | | | ||||     ||| |     ||||||| ||||||||||||||| | |||||||||||| || |||||||| |||||||| ||||||||| | || || ||||| || || |||||||||||  
-ttagttactgcttcaagatgatttgattg-acatattatgagaatttatttcagctatgt--cttgttctgtcta-atacttgtgttgaaacttgt-----aggTGTGCTGGATATCACAGTGAAGTTGATGCTCCTAGCCGAAGACTTGCTAAACCACTAATCTTTTGTAGGACTGAAAGTGACTGCCCCATGGAAAATGGCT

upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S36_16V6.1 (Physcomitrella patens), 3'ss of exon 4
------gttagttaccctgtcagattctttcacatgcatatcctgggagaaaaagctcaatatatgtggcaaactccttttacacattggtgtatgtgct-tcttttacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAAACCACTTATCTTTTGTCGAACCGAGAGTGATTGTCCAATGGAAAATGGT
      |      |   ||      || |     ||   |||   ||  | | |    |||||  ||||        |  ||| ||    |  |  |||| || | |  ||||||||||| ||| || | || |  ||  |||| |||||| |||| |  |  ||| | |||||||||||||||||||||||||||||| |||| || || 
gtatgcgccttccattttgcagcgctcgtggttgtggtaatctctggttatataagcaaatatgagtggtttggctatgatac-caacatttcaaatgctctcgtctgtagGTGTGTTGGTTATTACGGAGAGGAAGACTCTCCAAGTCGTCGACTCGGCAGGCCATTAATCTTTTGTCGAACCGAGAGTGATTGTCCACTGGAGAACGGC

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|161710705|gb|FC059063.1|FC059063
EST:     ATGAAGAAAAGGGGTATTGAGGATATGGATCTTGTGATGGTAGATCCCTG                         GTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAA
genomic: ATGAAGAAAAGGGGTATTGAGGATATGGATCTTGTGATGGTAGATCCCTGgttagttacc ... tcttttacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAA
EST: gi|161721603|gb|FC070813.1|FC070813
EST:     ATGAAGAAAAGGGGTATTGAGGATATGGATCTTGTGATGGTAGATCCCTG                         GTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAA
genomic: ATGAAGAAAAGGGGTATTGAGGATATGGATCTTGTGATGGTAGATCCCTGgttagttacc ... tcttttacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaatatatgtggcaaactccttttacacattggtgtatgtgcttcttttacagGTGTGTTGGATATCACAGTGATGCTGATGCTCCTAGTCGTAGACTTGCGAAACCACTTATCTTTTGTCGAACCGAGAGTGATTGTCCAATGGAAAATGGT
                                         tgcttctttt  CT-rich tract
                                            ttctttta  TA-rich tract