Sequence
atgc intronic sequence ATGC exonic sequence...taataatataattttgcattttacaatctttgtgttactggagttgtttcatctgatttattttattttatgttttatttttgtactttgataagagcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g04020.2 (Oryza sativa), 3'ss of exon 4
----------------taataatataattttgcattttacaatctttgtgttactggagttgtttcatc----tgatttattttattttatgttttatttttgtactttgataagag-----cagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG
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gtcagtcttctctatttacctttataactaaataagtgaaaatggccgc--tgatgaagtatagtgatcgtaatgtattaccacaagttactccttttctcaattgatgattaactggttttcagGTTTTATGGGACCTTCCAAGGTTTGTGAAGATAGTTGAAGTTGGACCACGGGACGGTCTGCAAAATGAGAAGAATACTGTACCCACATCTGTAAAGATTG
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g04020.1 (Oryza sativa), 3'ss of exon 3
-taataatataattttgcattttacaatctttgtgttactggagttgtttcatctgatt-tattttattttatgttttatttttgtactttgataagagcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG
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ataactaaataagt--gaaaatggccgctgatgaagtatagtgatcgtaatgtattaccacaagttactccttttctcaattgatgattaactggttttcagGTTTTATGGGACCTTCCAAGGTTTGTGAAGATAGTTGAAGTTGGACCACGGGACGGTCTGCAAAATGAGAAGAATACTGTACCCACATCTGTAAAGATTG
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os11g04210.1 (Oryza sativa), 3'ss of exon 3
taataatataattttgcattttacaatctttgtgttactggagttgtttcatctgatttattttattttatgttttatttttgtactttgataagag-----cagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG
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taactgaataagtgaaaat-----ggtggctgaaaaagtgtagtgattgtaaaatattactacaaattactcttttttctcaattgatgaataactggttttcagGTTTTGTGGGAGCTTCCAAGGTTTGTGAAGATAGTTGAAGTCGGACCACGGGATGGTCTGCAAAATGAGAAGAGTACTGTACCAGCTTCTGTAAAGATTG
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G44610.1 (Glycine max), 3'ss of exon 3
taataatataattttg-cattttacaatc--tttgtgttactggagttg-tttcatctgatttattttattttatgttttatttttgtactttgataagagcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG-----------
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--gtaatatattttaaactttttgttgtcgttttattttatcgcatttccttttctgctaattaacatattttcaattttaattggataatggcatgat-gcagtatctgaatagTATACCAAAGTTTGTAAAGATAGTAGAAGTTGGTCCAAGGGATGGATTACAAAATGAGAAGAACATTGTACCTACTGCTGTAAAGATTGAATTGATTCAC
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G04110.1 (Glycine max), 3'ss of exon 3
taataatataattttgcattttacaatctttgtg---ttactggagttgtttcatctgat--ttattttattttatgttttatttttgtactttgataaga-gcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG
||||| |||| | ||| | | ||||| || | || || ||| | ||| | |||| |||| || | | | || || ||||||| | |||||||||||||||| |||||||| ||||||||||||||||||||||| |||||||||||||| ||||| |||||| |||| || | |
-----atata-ttttaaactttctattgtttgtttattttatcacatttctttgtctagtaattagcatgttttcaatttttaattggacaatggctatgatgcagTTTCTGAATAGTATACCAAAGTTTGTAAAGATAGTAGAAGTTGGTCCAAGGGATGGATTACAAAATGAGAAGAACATTGTGCCTACATCTGTGAAGATTG
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G08360.1 (Glycine max), 3'ss of exon 4
taataatataattttgcattttacaatctttgtgttactggagttgtttcatctgatttattttattttatgttttatttttgtactttgataagagcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG----------
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---------------------------------------------gtatcatatttctttggctggtaagtaacatacaattttaattgggcaat-gcagtttatgaaagGTATACCAAACTTTGTAAAGATAGTTGAAGTTGGTCCAAGGGATGGATTACAAAATGAGAAAAACATTGTACCAACAGATGTAAAGATTGAATTGATTCA
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G36340.1 (Glycine max), 3'ss of exon 2
-taataatataattttgcattt-tacaatctttgtgttactggagttgtttcatctgatt-tattttattttatgttttatttttgtactttgataagagcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG
| | | | || | ||||| ||| ||| | | || || | || | || | | || | | | |||||| ||| | ||||||| | |||||||||||| ||||| |||||||| ||||||||||||||||||||||| ||||||||||| || |||||||| |||| |||||| | |
ttgacatttatgttatacatttatactttctgtagttggttgattttatcatatttcgttgtctggtaagtaacatacaatttttaa---ttgggcaatgcagTTTATGAAAGGTATACCAAAATTTGTAAAGATAGTTGAAGTTGGTCCAAGGGATGGATTACAAAATGAGAAAAACATTGTACCAACAGATGTAAAGATTG
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G26800.3 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------------------------------------ta-ataatataattttgcat-----tttacaatctttgtgt-tactggagttgtttcat--------ctgatttattttattttatgttttatttttgtactttgataagagcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG
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gtaattgtctcgatggaggaaagtagtttttgacctctatataaaacatatccacagatacctcgttccccgtctatgtaggatagttttgtataatgattcatctttttcatttctgtttaaaatttcccactacaaccaccatttttttttctctcttattctgttttttttctgtttggaatttagATCTCTAAAGGTATACCAAAGTTTGTGAAGATTGTAGAAGTTGGTCCAAGAGATGGCCTGCAGAATGAGAAAAATATAGTACCCACATCTGTAAAGGTGGMapped 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|110703203|gb|EE079843.1|EE079843EST: AATATGGCTTCCAATGCAATAACAAAGGTGTAAGGGGCATGGCAAATAAG TTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGA
genomic: AATATGGCTTCCAATGCAATAACAAAGGTGTAAGGGGCATGGCAAATAAGgtgattcatt ... ataagagcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcatctgatttattttattttatgttttatttttgtactttgataagagcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG
atttattttattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taataatataattttgcattttacaatctttgtgttactggagttgtttcatctgatttattttattttatgttttatttttgtactttgataagagcagTTTTTAGGAGGTATACCAAAGTTTGTGAAGATAGTGGAAGTTGGTCCAAGGGATGGATTGCAAAATGAGAAGAATATTGTACCTACAGCTGTAAAAGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - -ttttgca
- - - - - - - - - - - - - - - - - ttactgg