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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttgatggaaattagctttttagattgtattcttcgttccttacttccttgacaaatgacaagatagaaatcactgtgttgttcattgatataattgaatttttagAGCTGGTTCAAAACTAGTCTATCACCGACTACCTTGGCAAGAGCCTGATGCACCATACTTGCTAGAGATTTTATATGAAGATGATGATGTG

Basic information

species Vitis vinifera
transcript Vv13s0019g04000.t01
intron # 4
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|161707605|gb|FC056021.1|FC056021
EST:     ATAACAGTCGATGGGACAGTTGTTACGGAGCCCAAGACAATTCTCAG                         AGCTGGTTCAAAACTAGTCTATCACCGACTACCTTGGCAAGAGCCTGATGC
genomic: ATAACAGTCGATGGGACAGTTGTTACGGAGCCCAAGACAATTCTCAGgtttttgatg ... gaatttttagAGCTGGTTCAAAACTAGTCTATCACCGACTACCTTGGCAAGAGCCTGATGC
EST: gi|161716883|gb|FC068117.1|FC068117
EST:     ATAACAGTCGATGGGACAGTTGTTACGGAGCCCAAGACAATTCTCAG                         AGCTGGTTCAAAACTGGTCTATCACCGACTACCTTGGCAAGAGCCTGATGC
genomic: ATAACAGTCGATGGGACAGTTGTTACGGAGCCCAAGACAATTCTCAGgtttttgatg ... gaatttttagAGCTGGTTCAAAACTAGTCTATCACCGACTACCTTGGCAAGAGCCTGATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaatgacaagatagaaatcactgtgttgttcattgatataattgaatttttagAGCTGGTTCAAAACTAGTCTATCACCGACTACCTTGGCAAGAGCCTGATGCACCATACTTGCTAGAGATTTTATATGAAGATGATGATGTG
                                cattgat  putative branch site (score: 4)
                                                ttttt  putative PPT
                           ttgttcattgatataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttttgatggaaattagctttttagattgtattcttcgttccttacttccttgacaaatgacaagatagaaatcactgtgttgttcattgatataattgaatttttagAGCTGGTTCAAAACTAGTCTATCACCGACTACCTTGGCAAGAGCCTGATGCACCATACTTGCTAGAGATTTTATATGAAGATGATGATGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG