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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggctggagcgttgcattgctgagtgataaccctaatgcccatcctttgatttgatccgatttttgatccattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGATGTGGTGTCCACAGACTTCATTGGTGACAGCAG

Basic information

species Vitis vinifera
transcript Vv01s0010g02460.t01
intron # 9
splice site 3'
intron type U2

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|33406621|gb|CF212248.1|CF212248
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTG
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTG
EST: gi|161720959|gb|FC070345.1|FC070345
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTC
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTC
EST: gi|110703819|gb|EE080998.1|EE080998
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
EST: gi|110384047|gb|EC948461.1|EC948461
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
EST: gi|30302893|gb|CB979687.1|CB979687
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
EST: gi|110363529|gb|EC927123.1|EC927123
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
EST: gi|71886922|gb|DT035977.1|DT035977
EST:     TTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
genomic: TTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
EST: gi|30134770|gb|CB920108.1|CB920108
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
EST: gi|110373445|gb|EC937683.1|EC937683
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTA
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTA
EST: gi|110707438|gb|EE083837.1|EE083837
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
EST: gi|71856620|gb|DT005675.1|DT005675
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
EST: gi|110371235|gb|EC935092.1|EC935092
EST:     GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAA                         GGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA
genomic: GTTAGGCTTGAGAAATCGGCCACCTATGACGAGGTCAAAGCCGCTATCAAgtaagtggct ... cattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgataaccctaatgcccatcctttgatttgatccgatttttgatccattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGATGTGGTGTCCACAGACTTCATTGGTGACAGCAG
                                   atttttgat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtggctggagcgttgcattgctgagtgataaccctaatgcccatcctttgatttgatccgatttttgatccattactcagGGAGGAGTCTGAAGGCAAACTCAAGGGAATCCTGGGGTACACTGAAGATGATGTGGTGTCCACAGACTTCATTGGTGACAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG