Sequence
atgc intronic sequence ATGC exonic sequencegtacttaacacttaatgcttttatttattcattcatttatttttgttggtgaatggggaaggggactccagaatgctgaccattcacctttcactttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCACAAGGTGGATGCCTACAGCTTTGCTATTGTACTGTGGGAACTCGTTCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g00370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g38080.1 (Oryza sativa), 3'ss of exon 5
gtacttaacacttaatgcttttatttattcattcatttatttttgttggtgaatggggaaggggactccagaatgctgaccattcacctttcactttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCACAAGGTGGATGCCTACAGCTTTGCTATTGTACTGTGGGAACTCGTTCATA
| || | || | || || || ||||| | | | | ||| | | | || || | | || | || |||||||| ||||||||||||||||| ||||||||||||||||| || || || | || |||||||| ||||| | ||||||||| |||| |
----------------gtttctgttactgca---gttcatatttgtcaatata-----attcttttttgtcaatatttgctaatc--ctgaaatatatccacagTTGTACAGCACAGTGACATTGAGGCATGGAGAAAAGAAGCATTACAATCATAAAGTAGACGTTTATAGCTTTGCAATTGTGTTATGGGAACTCCTTCACA
upper sequence: Vv14s0066g00370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G165231_T01 (Zea mays), 3'ss of exon 4
gtacttaacacttaatgcttttatttattcattcatttatttttgttggtgaatggggaaggggactccagaatgctgaccattcacctttcactttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCACAAGGTGGATGCCTACAGCTTTGCTATTGTACTGTGGGAACTCGTTCATA
| || || | ||| ||| | |||| ||| ||| | || || | | | | | |||| | || || | || |||||||||||| ||||||||||||| |||||||||||||| ||||| || |||| |||||||||||| ||||| ||||||||||| | || |
----------------gtttctactg---catccatat-ttttagtttctgagtccttaatt---ttctgtattattaatg--taacctgggaattctaaacagTTGTACAGCACAGTAACACTGAGGCATGGAGAAAAGAAGCATTACAACCACAAAGTAGATGTCTACAGCTTTGCAATTGTGTTGTGGGAACTCCTCCACA
upper sequence: Vv14s0066g00370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G27560.1 (Arabidopsis thaliana), 3'ss of exon 4
gtacttaacacttaatgcttttatttattcattcatttatttttgttggtgaatggggaaggggactccagaatgctgaccattcacctttcactttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCACAAGGTGGATGCCTACAGCTTTGCTATTGTACTGTGGGAACTCGTTCATA
|||| || | || || ||| | | || || || | | || | |||| || || | | | || | |||| || || || || || || ||||| ||||||||||| || || ||||| || || ||||| ||||||||||| ||||| |||||||||| ||| |
----gtaac-tatattactactaacccgggatttttcttttctt-ttcgcggttgtcttatcggac------atcttggttaatgaa---------tgatacagCTCTACAGTACGGTTACGTTAAGGCAAGGAGAGAAGAAACACTATAATCATAAAGTAGATGCTTACAGCTTTGCCATTGTCTTGTGGGAACTTATTCTCA
upper sequence: Vv14s0066g00370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ07184 (Selaginella moellendorffii), 3'ss of exon 4
gtacttaacacttaatgcttttatttattcattcatttatttttgttggtgaatggggaaggggactccagaatgctgaccattcacctttcactttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCACAAGGTGGATGCCTACAGCTTTGCTATTGTACTGTGGGAACTCGTTCATA
| | || | |||| | | | || | | | | || | | | ||| |||| ||| | | |||| || ||||| || || | || | || || ||||||||||| ||||| |||||||| | |||||||||||| || || ||||||| || | |
-----------------------gtcagatatgctcttatccataatcttccattttgta-------ctaaaa--caaaaccttc-tcttttactccctcgcagCTCTACAGCACGGTGACGCTAAGAAACGGCGAAAAGAAGCATTATAATCAAAAGGTGGACGTCTACAGCTTTGCAATCGTGTTGTGGGAGCTGCTGACCA
upper sequence: Vv14s0066g00370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ09179 (Selaginella moellendorffii), 3'ss of exon 4
gtacttaacacttaatgcttttatttattcattcatttatttttgttggtgaatggggaaggggactccagaatgctgaccattcacctttcactttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCACAAGGTGGATGCCTACAGCTTTGCTATTGTACTGTGGGAACTCGTTCATA
||||| |||| || | || | ||||| ||| | | || | | | ||| |||| ||| | | |||| || ||||| || || | || | || || ||||||||||| ||||| |||||||| | |||||||||||| || || ||||||| || | |
-------gtgagatatgctcttatccat--aatcttccatttt-----gtg----------------ctaaaa--caaaaccttc-tcttttactccctcgcagCTCTACAGCACGGTGACGCTAAGAAACGGCGAAAAGAAGCATTATAATCAAAAGGTGGACGTCTACAGCTTTGCCATCGTGTTGTGGGAGCTGCTGACCAMapped 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|110429607|gb|EC996103.1|EC996103EST: CAGAGATGATGACTGCCGAAACTGGAACGTATCGTTGGATGGCTCCAGAG CTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCAC
genomic: CAGAGATGATGACTGCCGAAACTGGAACGTATCGTTGGATGGCTCCAGAGgtacttaaca ... tttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCAC
EST:
gi|110426961|gb|EC993390.1|EC993390EST: CTGGAACGTATCGTTGGATGGCTCCAGAG CTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCAC
genomic: CTGGAACGTATCGTTGGATGGCTCCAGAGgtacttaaca ... tttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCAC
EST:
gi|110382036|gb|EC938309.1|EC938309EST: CGAAACTGGAACGTATCGTTGGATGGCTCCAGAG CTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCAC
genomic: CGAAACTGGAACGTATCGTTGGATGGCTCCAGAGgtacttaaca ... tttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaatggggaaggggactccagaatgctgaccattcacctttcactttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCACAAGGTGGATGCCTACAGCTTTGCTATTGTACTGTGGGAACTCGTTCATA
tgctgac putative branch site (score: 2)
ttcacctttcacttt putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttaacacttaatgcttttatttattcattcatttatttttgttggtgaatggggaaggggactccagaatgctgaccattcacctttcactttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCACAAGGTGGATGCCTACAGCTTTGCTATTGTACTGTGGGAACTCGTTCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA