Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagattttttcgggatcttcgtgctggttgttacagaattgatgtcttttgattgatgattggattcgataatttgtgtttcttggaattgtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCTGTCGGTTCTATTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTA

Basic information

species Vitis vinifera
transcript Vv07s0005g03790.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|110397988|gb|EC964029.1|EC964029
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|30305880|gb|CB982674.1|CB982674
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCGATGTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|71858858|gb|DT007913.1|DT007913
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCC
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|161716900|gb|FC064979.1|FC064979
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|71857444|gb|DT006499.1|DT006499
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|294967254|gb|GW840129.1|GW840129
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|71864238|gb|DT013293.1|DT013293
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|30130655|gb|CB915994.1|CB915994
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|71861252|gb|DT010307.1|DT010307
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCGGAGTTGATGAGCAAATATGGAATCAATTTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|71856468|gb|DT005523.1|DT005523
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
EST: gi|37187335|gb|CF606688.1|CF606688
EST:     GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAG                         GGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT
genomic: GAAAATGGCAGCAACAGCAGCTCCGCCGTCTCAACATTCACGAGTATCAGgtcccttttc ... gtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttgattgatgattggattcgataatttgtgtttcttggaattgtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCTGTCGGTTCTATTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTA
     gattgat  putative branch site (score: 4)
                       ataatttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagattttttcgggatcttcgtgctggttgttacagaattgatgtcttttgattgatgattggattcgataatttgtgtttcttggaattgtgaaatcagGGGGCTGAGTTGATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCTGTCGGTTCTATTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - gtgctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcttgg