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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctgtttgaagttgcaatgttgtgcatgatcttgttattcaatgtcttgcttttctgatattgttctttccgactgatatatgcaataacctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCACATAATCTTGTGGATCTCTTTGAGGACA

Basic information

species Vitis vinifera
transcript Vv17s0000g07960.t01
intron # 1
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|32271062|gb|CD720221.1|CD720221
EST:     ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATT                         TTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGG---AT--C
genomic: ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATTgtgagattcc ... ctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCAC
EST: gi|32271807|gb|CD720966.1|CD720966
EST:     ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATT                         TTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGG---AT--C
genomic: ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATTgtgagattcc ... ctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCAC
EST: gi|32272372|gb|CD721531.1|CD721531
EST:     ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATT                         TTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGG---AT--C
genomic: ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATTgtgagattcc ... ctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCAC
EST: gi|30327528|gb|CD010790.1|CD010790
EST:     ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATT                         TTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGG---AT--C
genomic: ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATTgtgagattcc ... ctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCAC
EST: gi|32272391|gb|CD721550.1|CD721550
EST:     ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATT                         TTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGG---AT--C
genomic: ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATTgtgagattcc ... ctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCAC
EST: gi|32271578|gb|CD720737.1|CD720737
EST:     ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATT                         TTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGG---AT--C
genomic: ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATTgtgagattcc ... ctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCAC
EST: gi|32272363|gb|CD721522.1|CD721522
EST:     ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATT                         TTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGG---AT--C
genomic: ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATTgtgagattcc ... ctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCAC
EST: gi|30324813|gb|CD008075.1|CD008075
EST:     ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATT                         TTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGG---AT--C
genomic: ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATTgtgagattcc ... ctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCAC
EST: gi|32270967|gb|CD720126.1|CD720126
EST:     ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATT                         TTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGG---AT--C
genomic: ATAAGATAAAAACAAGTGAAGCATCGATCTAGGAAATTTGAGTGGCAATTgtgagattcc ... ctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgcttttctgatattgttctttccgactgatatatgcaataacctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCACATAATCTTGTGGATCTCTTTGAGGACA
                                      caataac  putative branch site (score: 2)
                                            cctgtttct  CT-rich tract
            atattgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctgtttgaagttgcaatgttgtgcatgatcttgttattcaatgtcttgcttttctgatattgttctttccgactgatatatgcaataacctgtttctagTTTTGGACATTAAAAACTGAGGCTATCTACTTCACCATCTCGGATCATCACATAATCTTGTGGATCTCTTTGAGGACA

-ctgtttg
- - - - - - - caatgtt
- - - - - - - - - - - - catgatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caataac