Sequence
atgc intronic sequence ATGC exonic sequence...tggattactgtttgtcttaccatttaaaattggcatgggagaactaaaagaaaactttctgattattatcacaattataattacaattgttatattgcagTTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAAGAAACAAAAGCTTTGGTGCCTGCATTACCACTGCTTATTGCTCATTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g02290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g06470.1 (Oryza sativa), 3'ss of exon 3
--------------------------tggattactgtttgtcttaccatt-taaaattggcatgggagaactaa--aagaaaactttctgattattatca------------caattataattacaatt----gttatattgcagTTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAAGAAACAAAAGCTTTGGTGCCTGCATTACCACTGCTTATTGCTCATTTGG
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gttgatcatgctgcactaattgtttcgaagctatatcttcattaaatattataaagctgagttgaatgtgttcagcattataattctatatcttttgttatttgaagtttgtctcttatcaggaccattcatgattttaatgcagTTGCTAGAGGCAGCTTGGTGCCTTACAAACATAGCAGCTGGGGAACCAGAAGAAACAAAATCCTTGCTGCCTGCTCTACCATTGCTTATTGCTCACCTTG
upper sequence: Vv08s0040g02290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G165692_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------------tggatta---ctgtttgtcttaccatttaaaattggcatgggagaactaaaagaaaactttctgat-tattatcacaattataattacaattgttatattgcagTTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAAGAAACAAAAGCTTTGGTGCCTGCATTACCACTGCTTATTGCTCATTTGG
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gttgagcacactccgcttattgttccatatctctaccagtacaactaaactgagtaaagtttgggtgtgttgatcattcacatgataattgtatcactatactcagttgatcttttctcttatcaagattct--tcatgcttttttaattgcagTTGCTAGAGGCAGCTTGGTGCCTTACAAACATAGCGGCAGGGAAACCTGAGGAAACTAAATCCTTACTTCCTGCTCTACCATTGCTCATTGCTCACCTTG
upper sequence: Vv08s0040g02290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G20090.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------------------tggattactgtttgtcttaccatttaaaattggcatgggagaactaaaagaaaactttctgattattatcacaattataattacaattgttatattgcagTTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAAGAAACAAAAGCTTTGGTGCCTGCATTACCACTGCTTATTGCTCATTTGG
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gtctgaagtttcatcttcctttgaatgatgttcaatgacttgtatgaatgtttgtactctcaaaaggcttgagcaagcacatctctgtgcatccttatgcaagat-aatatggaaccagtagtgggaagaaattttcttaatgcttacattttg-tggtgaatgtctt-ctgcagTTGCTTGAGGCAGCTTGGTGTCTCACAAATATTGCTGCAGGGAATCCAGAAGAAACAAAAGCTTTGTTGCCTGCATTGCCCTTGCTTATTGCTCATCTTG
upper sequence: Vv08s0040g02290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G05740.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------------------------------tggattactgtttgt-cttaccatttaaaattggcatgggagaactaaaagaaaactttctgattattatcacaattataattacaattgttatattgcagTTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAAGAAACAAAAGCTTTGGTGCCTGCATTACCACTGCTTATTGCTCATTTGG
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gtctgaagtttcatcttcctttgaatgatgttcaatgacttctatgaatatttgtgctctcaaaacgcttgagcaagcacatctctgtgcatgctatgcaagat-aatacggaaccagtggtgggaagaaattttcttaatgcttacattctg-tggtgaatgtctt-ctgcagGTGCTTGAGGCTGCTTGGTGTCTCACAAATATTGCTGCAGGGAATCCAGAAGAAACAGAAGCTCTGTTGCCTGCATTGCCCTTGCTTATTGCTCATCTTG
upper sequence: Vv08s0040g02290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G03070.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------------------------------------tggattac-tgtttgtcttaccattta------aaattggcatggga-----gaactaaaagaaaactttctgattattatcacaat--tataattacaat--tgttatattgcagTTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAAGAAACAAAAGCTTTGGTGCCTGCATTACCACTGCTTATTGCTCATTTGG
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gttacatttgccttatatatgctttaatactatacctttgttcttgcatttatttgcttatatattcgtccggcactttactgtagattttgacaagtaactcatgcattgaaagaagatatattaaggagagttgtaatcttttgatcacagttctgtctaactgcagTTACTTGAGTCAGCTTGGTGTCTTACCAACATTGCTGCTGGAAAACCTGAAGAAACAAAAGCTCTATTACCTGCATTGCCGTTACTCATTGCTCACCTTGMapped 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|161714602|gb|FC063574.1|FC063574EST: CAGTTTCTGTTCTTGTGCAGTGTCTTTCATTTGGTTCTCCAGATGAGCAG TTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAA
genomic: CAGTTTCTGTTCTTGTGCAGTGTCTTTCATTTGGTTCTCCAGATGAGCAGgttctaagaa ... tatattgcagTTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaagaaaactttctgattattatcacaattataattacaattgttatattgcagTTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAAGAAACAAAAGCTTTGGTGCCTGCATTACCACTGCTTATTGCTCATTTGG
tgattattatcacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggattactgtttgtcttaccatttaaaattggcatgggagaactaaaagaaaactttctgattattatcacaattataattacaattgttatattgcagTTGCTTGAGGCAGCTTGGTGCCTTACAAATATTGCAGCTGGAAAACCAGAAGAAACAAAAGCTTTGGTGCCTGCATTACCACTGCTTATTGCTCATTTGG
- - - -ctgtttg
- - - - - - - -cttacca
- - - - - - - - - - - - -aaaattg
- - - - - - - - - - - - - - - - gcatggg
- - - - - - - - - - - - - - - - - - - - - - - -aagaaaa