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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGCATTCGAAGAAGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGCgtaagtagcttacattatttcggccttttatttttcttgttatcaagactttgattgtgcttcatacttattgaagaaagacttgcatttaatttttgtatagagtttgttggggtatattatgttctttgttttctctgtccttcctttttacactgcccttttctctcttgcag

Basic information

species Vitis vinifera
transcript Vv07s0031g01480.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g01480.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT5G10010.1 (Arabidopsis thaliana), 5'ss of exon 4
AAAGCATTCGAAGAAGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGCgtaagtagcttacattatttcggcc--ttttatttttcttgttatcaagactttgattgtgcttcat---acttattgaagaaagacttgcatttaatttttgtatagagtttgttggggtatattatgttctttgttttctct---gtccttcctttttacactgccct---tttctctcttgcag-------
 ||||||| || ||||| ||||| || ||||| ||||| |||||| ||||||||||| |||| ||||||   |||   |   ||       | ||  |||  || |    |      ||  |     || |   |||| |  ||  ||  || |  | |  |  || | |  | |||  |     |   |||| ||| |   || |||       || ||| ||   ||   ||   ||| ||| ||  |        
GAAGCATTGGAGGAAGGAGGAAAGCTCTATGGGAAGAAGGTTTATGTCTTTGGCTGTACAGAACgtaagctacttctctcgctttttttaatcttgctttgattataggtagtttactgtcttcttatcgtttgacttgtctaaataatcctcggctcttgtggttctttctaatttacttcaaaaatctatgctctcttccttttcttgaacatttgcttcttgttcttgtctaagtttttctttttaacgttacag
















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|351056116|gb|FQ453578.1|FQ453578
EST:     AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGC                         CTCAATTGGTTTCGTACAAGGGTGAAGATAAAGTTATCTGCATACCTGCTG
genomic: AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGCgtaagtagct ... tctcttgcagCTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
EST: gi|110715682|gb|EE094011.1|EE094011
EST:     AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGC                         CTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
genomic: AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGCgtaagtagct ... tctcttgcagCTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
EST: gi|30256159|gb|CB972002.1|CB972002
EST:     AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGC                         CTCAATTGGCTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
genomic: AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGCgtaagtagct ... tctcttgcagCTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
EST: gi|46917522|gb|CN546851.1|CN546851
EST:     AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGC                         CTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
genomic: AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGCgtaagtagct ... tctcttgcagCTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
EST: gi|77585124|gb|DV221654.1|DV221654
EST:     AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGC                         CTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
genomic: AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGCgtaagtagct ... tctcttgcagCTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
EST: gi|351021609|gb|FQ430496.1|FQ430496
EST:     AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGC                         CTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG
genomic: AGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGCgtaagtagct ... tctcttgcagCTCAATTGGTTTCGTACAAGGGTGAAAATAAAGTTATCTGCATACCTGCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGCATTCGAAGAAGGGGGAAAACTATATGGCAAGAAAGTTTATCTCTTTGGCTGTTCAGAGCgtaagtagcttacattatttcggccttttatttttcttgttatcaagactttgattgtgcttcatacttattgaagaaagacttgcatttaatttttgtatagagtttgttggggtatattatgttctttgttttctctgtccttcctttttacactgcccttttctctcttgcag

- - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT