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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTAGCTGCTGATGCAAAGTTGAACTTTGACGATAATGCTGCTTTTCGTCAGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttacttcttttaatttcttgaccctgttttatctgtgatgtaagtggaaagtagcacatgtacataccataaaggcaatccccctctcttcacaactacaaggtaaaactaaagaacaatatgtaatgttctatttgtggtttcactgtacaatag

Basic information

species Vitis vinifera
transcript Vv07s0005g03790.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g03790.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os02g40830.1 (Oryza sativa), 5'ss of exon 8
AGTAGCTGCTGATGCAAAGTTGAACTTTGACGATAATGCTGCTTTTCGTCAGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttacttctt-ttaatttcttgaccctgttttatctgtgatgtaagtggaaagtagcac--atgtacataccataaaggcaatccccctctcttcacaactacaaggtaaaactaaagaacaatatgtaatgttctatttgtggtttcactgtacaatag
 || |||||||||||||||||||||||||| || |||||||| ||| | |||||| | ||||||||  | |||||  |||||||||| |||||  |||||||    ||||| |||   | || ||| |  |  |||    |||  | |  |||     |       || ||  ||   |       ||   || ||  |                                                                  
GGTCGCTGCTGATGCAAAGTTGAACTTTGATGACAATGCTGCCTTTAGGCAGAAAGAGATATTTGCCATGCGTGACACAACACAGGAAGATCCCAGAGAGgt-atattactgcttgccatttcctttattcactttctcttgtagtctgtgtgttcctttatctctatctatgtattttttttttcatttaccccttcttt----------------------------------------------------------------

upper sequence: Vv07s0005g03790.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G064695_T01 (Zea mays), 5'ss of exon 8
AGTAGCTGCTGATGCAAAGTTGAACTTTGACGATAATGCTGCTTTTCGTCAGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgtt--gggttact--tcttttaatttcttgaccctgttttatctgtgatgtaagtggaaagtagcacatgtacataccataaaggcaatccccctctcttcacaactacaaggtaaaactaaagaacaatatgtaatgttctat--ttgtggtttcactgtacaatag---------------
 || |||||||||||||| ||||||||||| ||||||||||| ||| | |||||| | |||||||| || |||||| |||| ||||| || ||  | |||||      ||||   |||||  |||| || |  || |  | | ||| | ||        | | |    | | || |   | |      | ||  |   | |  |  | | | |  ||  |       |    ||| | || | |  || |    || | | || | |                
TGTTGCTGCTGATGCAAAATTGAACTTTGATGATAATGCTGCATTTAGACAGAAAGAAATATTTGCACTGCGTGATACAACTCAGGAAGACCCCAGGGAGgtataaaattacctatctttccatttgttcattctctcct-tgtgtcaagttttcttctaat-gtgtttttgcacattttgac-----ttccttttagtccttatttgcgatgagaacttgcctcttagctagtacttttttttggttatataatctcagcaccagaaccaatacctgtacag

upper sequence: Vv07s0005g03790.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA13G18730.1 (Glycine max), 5'ss of exon 8
AGTAGCTGCTGATGCAAAGTTGAACTTTGACGATAATGCTGCTTTTCGTCAGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttacttcttttaatttcttgaccctgttttatctgtgatgtaagtggaaagtagcacatgtacataccataaaggcaatccccctctcttcacaactacaaggtaaaactaaagaacaatatgtaatgttctatttgtggtttcactgtacaatag
 || ||||||||||| |||||||| ||||||||||||||||| | ||| |||||| | ||||||||||| |||||| ||||||| ||||| ||||||||||||    || ||||| |      |||    ||||||| ||    |   | ||||   ||  |    || |  ||||     | |||     | | | |   ||    ||                                                     
GGTGGCTGCTGATGCTAAGTTGAATTTTGACGATAATGCTGCATATCGCCAGAAAGAGATATTTGCTCTCCGTGATACAACACAAGAGGACCCTCGAGAGgtt----tatttcttat-----tttgtttgtgttttaccttacttaggaatggagcatatgatccctatac-ccatt----ccatctttgccacctga-gcctgggggggggggg-----------------------------------------------

upper sequence: Vv07s0005g03790.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA10G04480.1 (Glycine max), 5'ss of exon 8
AGTAGCTGCTGATGCAAAGTTGAACTTTGACGATAATGCTGCTTTTCGTCAGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttacttcttttaatttcttgaccctgttttatctgtgatgtaagtggaaagtagcacatgtacataccataaaggca-atccccctctcttcacaactacaaggtaaaactaaagaacaatatgtaatgttctatttgtggtttcactgtacaatag
 || ||||||||||| |||||||| ||||| ||||||||||| | ||| |||||| | |||||| |||| |||||| ||||||| ||||| ||||||||||||    |||||||| |      |||    ||||||| ||    ||| | ||||     ||| |||   || || || ||||| || ||| |  | ||    | ||  |    | ||   |                                          
GGTGGCTGCTGATGCTAAGTTGAATTTTGATGATAATGCTGCATATCGCCAGAAAGAGATATTTTCTCTCCGTGATACAACACAAGAGGACCCTCGAGAGgtt----tacttcttat-----tttgtttgtgttttaccttacttgtgaatgga-----gcatatg---atccc-tataggcatattcccattccatctttgccacctg----agctggggg-----------------------------------------

upper sequence: Vv07s0005g03790.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT2G20420.1 (Arabidopsis thaliana), 5'ss of exon 8
AGTAGCTGCTGATGCAAAGTTGAACTTTGACGATAATGCTGCTTTTCGTCAGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttacttcttttaatttcttgaccctgttttatctgtgatgtaagtggaaagt-agcacatgtacataccataaagg-caatccccctctcttcacaactacaaggtaaaactaaagaacaatatgtaatgttctatttgtggtttcactgtacaatag
 |||||||||||||| || |||||||| || ||||||||||| || || || ||| |  | || ||  | |||||| |||||||||||||||| ||||||||         ||| |  || |||||      | | |||    | |  | ||  | || |   |      ||   | || |   | |          ||| |                                                              
GGTAGCTGCTGATGCCAAATTGAACTTCGATGATAATGCTGCGTTCCGACAAAAAGAGGTTTTCGCCATGCGTGATCCAACACAGGAGGATCCACGAGAGgtc--------tctgtctatctcttg------tatcatcaagaaagccattgttatgttaattcgataggatgttaaaaggaatagtgtgttgtgtctcatag-------------------------------------------------------------

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|34545859|gb|CF514091.1|CF514091
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|34545781|gb|CF514013.1|CF514013
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|110379096|gb|EC944270.1|EC944270
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|30255821|gb|CB971953.1|CB971953
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGGACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|110733074|gb|EE108915.1|EE108915
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTA
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTA
EST: gi|110428351|gb|EC994820.1|EC994820
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|110688710|gb|EE067574.1|EE067574
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|110702283|gb|EE080823.1|EE080823
EST:     TGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: TGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|30256398|gb|CB972241.1|CB972241
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGGACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|110714835|gb|EE092196.1|EE092196
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|30305949|gb|CB982743.1|CB982743
EST:     TGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: TGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|110362830|gb|EC926386.1|EC926386
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|30256478|gb|CB972321.1|CB972321
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCAAAGCAGATTTGGACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
EST: gi|161713591|gb|FC062524.1|FC062524
EST:     AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAG                         GTGGCTGCTGCCCAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT
genomic: AGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttac ... tgtacaatagGTGGCTGCTGCCAAAGCAGATTTGAACTACATCGGCTTAGATGGAGAAATT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTAGCTGCTGATGCAAAGTTGAACTTTGACGATAATGCTGCTTTTCGTCAGAAACATATATTTGCTCTTCGTGATGCAACACAGGAGGATCCTCGAGAGgttgggttacttcttttaatttcttgaccctgttttatctgtgatgtaagtggaaagtagcacatgtacataccataaaggcaatccccctctcttcacaactacaaggtaaaactaaagaacaatatgtaatgttctatttgtggtttcactgtacaatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT