Sequence
atgc intronic sequence ATGC exonic sequence...caatatcataattctttcctatcctgtgcttatagttatagcaatatttagtgctatgattattcgttcttaaattttatatgttacatttacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGGATCAAGCAGCTCCCTTTAGACAGGCATTTTGACATCAACAATGTCAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 3'ss of exon 8
caatatcataattctttcctatcctgtgcttatagttatagcaatatttagtgctatgattattcgttcttaaattttatatgttacatttacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGGATCAAGCAGCTCCCTTTAGACAGGCATTTTGACATCAACAATGTCAAAA
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---gttagtgataagctcaagtatggtctttata--tatacct-taattagtatgtgccaaatgaaatacctgattacaaggctgttattcaatcaaaagGGGTCTGGTTGGAAAATTGTTGCAAGCTTTGAGGGGAAGTTTCCAGATAGGATCAAACAGCTTCCTTTGGACAGGCATTTTGATATTAACAATGTCAAAA
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os08g32920.1 (Oryza sativa), 3'ss of exon 8
caatatcataattctttcctatcctgtgcttatagtta--tagcaatatttagtgctatgattattcgttcttaaattttatatgttacatttacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGGATCAAGCAGCTCCCTTTAGACAGGCATTTTGACATCAACAATGTCAAAA
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--gtctagtttttttttgtcaccttttgacttctgaaagctatccatttttaagacatggtataatttcaatcatatatgagatgctatcctaattgtacagGGTGGAGGTTGGAAAGTTGTTGCAAGCTTTGAGGGGAAGTTCCCAACCAGGATCAAACAACTCCCTCTGGACAAGCATTTTGATATGAAAAATGTGAAAA
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G485898_T03 (Zea mays), 3'ss of exon 8
--caatatcataattctttcctatcctgtgc--ttatagttatagcaatatttagtgctatgattattcgttctta-aattttatatgttacatttacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGGATCAAGCAGCTCCCTTTAGACAGGCATTTTGACATCAACAATGTCAAAA
||| ||| | | || || | || || | ||| | || | || ||| | ||| ||||||| ||| ||| || ||||||| |||||||| || ||||| ||||||||||| || ||||| | |||||||| || || ||| | || | ||||||||| || || ||||||||||
ttcaaaggtgtaaatttgcccctctctacgaagtttctcttttttcaagactt--tactgaatttaaaagaccttgcaattttacggtttatgcttatgt---agGGTGCCGGTTGGAAAGTTGTTGCTAGTTTTGAGGGAAAGTTTCCAACTAGGATCAAACAACTACCTGTGGAAAAGCATTTTGATATGAAAAATGTCAAAA
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G37100.1 (Glycine max), 3'ss of exon 8
--caat--atcataattctttcctatcctgtgcttatagttatagcaatatttagtgctatgattattcgttcttaaattttatatgttac-atttacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGGATCAAGCAGCTCCCTTTAGACAGGCATTTTGACATCAACAATGTCAAAA
|| | | | |||| || || |||| | || || | | ||| || |||| | || | ||| |||||||| || | ||| |||||||| ||||||||||| | ||| || |||||||||||| |||||| | || || ||||| | |||||||| ||||||||||| ||||||||||| || |
agcatttggtgacaatttgttttcatgttgtgttaatgaataatgaattatata----tatgttgcttgggactttt-ttttatatactattaattatctggcagGGAGCTGGTTGGAAAATTGTTTCCTGTTTTGAGGGGAGATTTCCTGATAGAATGAAGCAATTACCTTTAGATAGGCATTTTGATATCAACAATGTGAAGA
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G00430.1 (Glycine max), 3'ss of exon 8
--caat--atcataattctttcctatcctgtgcttatagttatagcaatatttagtgctatgattattcgttcttaaattttatatgttac-atttacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGGATCAAGCAGCTCCCTTTAGACAGGCATTTTGACATCAACAATGTCAAAA
|| | | | |||| || || |||||| || ||| | |||| | |||| || | | | | ||| |||| || | ||| || ||||| |||||||||| | ||| | |||||||||||| |||||| | || || ||||| | |||||||| ||||||||||| ||||||||||| || |
agcatttggtgacaatttgttttcatgttgtgctaatga--ataatga-attttata-tatg-ttgcttgggcctttttttgatatactattaattatctgacagGGATCTGGTTGGAAAATTGTTTCTTGTTTTGAGGGGAGATTTCCTGATAGAATGAAGCAATTACCTTTAGATAGGCATTTTGATATCAACAATGTGAAGA
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 8
----caatatcataattctttcctatcctgtgcttatag-ttatagcaatatttagtgctatgattat-tcgttcttaaattttatatgttacatttacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGGATCAAGCAGCTCCCTTTAGACAGGCATTTTGACATCAACAATGTCAAAA
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gatatagagtttttgtacttgtctgtgttcagtttatgggctgaagtcccttttggagcttggcaaatgtttttctcaaaactt-----tttgattcttgtt-cagGGAAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGAAATTTCCCCAACCGTATCAAGCAGCTTCCATTGGATAGACATTTTGACCTGAACAATGTTAAAAMapped 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|161717164|gb|FC065927.1|FC065927EST: TTTGCCGTGAATTTGAGGATAAGTTCCTCCTGCACATTGCAGGGGGTGAG GGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGG
genomic: TTTGCCGTGAATTTGAGGATAAGTTCCTCCTGCACATTGCAGGGGGTGAGgtgagtcaat ... tacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttagtgctatgattattcgttcttaaattttatatgttacatttacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGGATCAAGCAGCTCCCTTTAGACAGGCATTTTGACATCAACAATGTCAAAA
attattcgttcttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caatatcataattctttcctatcctgtgcttatagttatagcaatatttagtgctatgattattcgttcttaaattttatatgttacatttacgtggcagGGTGCTGGTTGGAAGGTCGTTGCCAGTTTTGAGGGGAATTTTCCTAACAGGATCAAGCAGCTCCCTTTAGACAGGCATTTTGACATCAACAATGTCAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - tctttcc
- - - - - - - - - - - cctgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - gctatga