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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaagcatcttgcaatgttaatcttgatttttctgtagccctagtaaaagaacttccgcttgcccacatgttataggttgcacagtaggatctttttcagatattgttcatatgcttgatgccctttgctgtttttctgttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAAGGTTTTGGGATTGAG

Basic information

species Vitis vinifera
transcript Vv01s0026g00990.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0026g00990.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G59900.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagaagcatcttgcaatgttaatcttgatttttctgtagccctagtaaaagaacttccgcttgcccacatgttataggttgcacagtaggatctttttcagatattgttcatatgcttgatgccctt-tgc---tgtttttctgttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAAGGTTTTGGGATTGAG
                                                                               ||   |||  ||   | ||   |  |      | ||  || ||  ||||| |||     | | | |    |  |||||  |  ||||||| ||||||||||| ||||| |||||||| |||||||| || ||||| |  |||
-------------------------------------------------------------------------------gtaaaacaacagttacattactactttcaaagcgtaaactcgagacccttatgcgaaaatctctgtaccgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAGGGATTTGGCACCGAG
















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|110417777|gb|EC983859.1|EC983859
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
EST: gi|27585723|gb|CB008418.1|CB008418
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGT
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGT
EST: gi|110360358|gb|EC923399.1|EC923399
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
EST: gi|110383536|gb|EC947914.1|EC947914
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
EST: gi|27583148|gb|CB005843.1|CB005843
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
EST: gi|30298455|gb|CB975249.1|CB975249
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTTTGAACTCTTCACCAATGTATATGTGAAA
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
EST: gi|110384826|gb|EC949291.1|EC949291
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
EST: gi|110703998|gb|EE081422.1|EE081422
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
EST: gi|110423195|gb|EC989535.1|EC989535
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
EST: gi|32245966|gb|CD711785.1|CD711785
EST:     TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAG                         GAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA
genomic: TTGAGAAGAAAATCAGAAGTGAAGTAGATGATGCTATTGCACAAGCCAAGgtaagaagca ... gttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcagatattgttcatatgcttgatgccctttgctgtttttctgttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAAGGTTTTGGGATTGAG
                    gcttgat  putative branch site (score: 5)
                            ccctttgctgtttttc  CT-rich tract
       atattgtt  TA-rich tract