Sequence
atgc intronic sequence ATGC exonic sequencegtgagaaactttgccattatgatcgttttcattttccaaaatttgaaaattggagttttggtgaagtttctctcctaataacatgatgttggtactttggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 5
-----------gtgagaaactttgccattatgatcgttttcattttccaaaatttgaaaattggagttttggtgaagt--ttctctcctaataacatgatgttggtac-------tttggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAG
|| || | ||| || ||||||| | | || | || | ||| | || | | ||| || | | | ||| | | | | || ||| || ||||| || |||||||||||||| || |||||||| ||||| ||||| ||||||
gtaagctgaatctgcacaattcatgtatttgcataaatttcattattaattcttatttcaatgaaatttatgcaaatacgtgtacacctgatgtctaaaagctggcccccattcttgttgcctgcagTCCGATGATGAGCGTGAGATGTGTGCAAGGACTATTTACTGCACAAACATTGACAAGAAG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 3
--gtgagaaacttt----gccattatgatcgttttcattttccaaaatttgaaaattggagttttggtgaagtttctctcctaataacatgatgttggtactttggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAG
|| || ||| ||| ||| | || || | || | || || | | | | | |||| | || || | | || || || ||| ||| |||||||| || ||||||||||| ||||| ||||| ||||| ||||| ||||||
gtatgcaaaccttctggaaccaacatgcttgtcttaagttcatgg---ctcaatgttcatgctctatctgatatggtctctaagaaagttggtcgattttctgtgctctccagCCTGACGATGAACGTGAAATGTGTGCAAGGACAATCTACTGCACAAACATTGACAAGAAG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G32790.2 (Arabidopsis thaliana), 3'ss of exon 5
gtgagaaactttgccattatgatcgttttcattttccaaaatttgaaaattggagttttggtgaagtttctctcctaataacatgatgttggtactttggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAG
|| ||| | | | || ||| | || || || ||| | | || ||||| || || | | | | |||| ||||||||| || ||||||||||||||||| || |||||||| || || || ||||||
------------------------gtgagattttcctctactatgcaaagt----ttctgatg--gttagcgactgaggaaaatgat-ttagtcttgtcta-tgcagACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G10610.2 (Arabidopsis thaliana), 3'ss of exon 5
gtgagaaactttgccattatgatcgttttcattttccaaaatttgaaaattggagttttggtgaagtttctctcctaataacatgatgttggtact---ttggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAG
| | | | || | | || || | | | || | || | ||| | | |||| || || || || | | ||| ||||||||| || ||||||||||||||||| || ||||| || || ||||| ||||||
---------------gtaaggttttttcttgtgtttcatcacattctgactgcaaagttatggttttttagactcaagaggtttgattttagtcctgtctttgttcttagACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGCACTAACATTGACAAGAAG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S62_224V6.1 (Physcomitrella patens), 3'ss of exon 5
gtgagaaactttgccatt---atgatcgttt-tcattttccaaaatttgaaaattggagttttggtgaagtttctctcctaataacatgatgttggtactttggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAG
|| || || | ||| ||| | || | ||| | || ||| | | | |||| | | ||| |||| | | |||| | | | ||| ||||||||| || || ||||||||| | || || ||||||||||||||||| ||||||
-ggaattgtttcatacttgcaacgattgttagtgatatgccatagttcttgaat-acggctcggatgaattctggctc----taacttagt-----tactctccattacagTCTGAAGATGAGCGTGAAATGTGTGCACGGACCATCTACTGTACAAATATTGACAAGAAG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S196_50V6.1 (Physcomitrella patens), 3'ss of exon 6
-------gtgagaaactttgccattatgatcgttttcattttccaaaatttgaaaattggagttttggtgaagtttctctcctaataacatgatgttggtactttggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAG
||| ||| ||| | | | ||| | || | || || |||||| || | | || | | |||| | | | || | ||||| |||||| || || || ||||||||| | || || ||||||||||||||||||||||||
aagaattttgataaatttt--tagtgacgtagttgt-atgtgaacaatcctggaaattg---cttcaataaggtggttgttctaacacaac--------ttctctatgtttcagTCTGAAGACGAGCGTGAAATGTGTGCACGTACCATCTACTGTACAAATATTGATAAGAAGMapped 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|34416313|gb|CF415067.1|CF415067EST: TGCCATCTAAAACAGCCATTGCACCAGTTAACCCTACATTTTTGCCTAGG AATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATT
genomic: TGCCATCTAAAACAGCCATTGCACCAGTTAACCCTACATTTTTGCCTAGGgtgagaaact ... tggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagttttggtgaagtttctctcctaataacatgatgttggtactttggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAG
taataac putative branch site (score: 1)
taataacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaaactttgccattatgatcgttttcattttccaaaatttgaaaattggagttttggtgaagtttctctcctaataacatgatgttggtactttggacttcagAATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG