Sequence
atgc intronic sequence ATGC exonic sequence...caaaccaaaaaaagaaaaaaaaagtagcaattgtatgcacttcatcaaagttaagtgttttcttgacaatggtctcagtctaagcaattctattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G129155_T01 (Zea mays), 3'ss of exon 12
-caaaccaaaaaaagaaaaaaaaagtagc--aattgtatgcacttcatcaaagttaagtgttttcttgacaatggtctcagtctaagcaattcta-ttctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
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accggctataagtttatttggtcatctgtataattgtttgc-ttgcattgacctttcttgttttcctta---ttcattcactagcaacaatgttaattgtgcagGAAGATTACATAAACACGTCACACCCAAATTTTATTGGTGGCAGCAAGGCTGTTGAGCAAGCACAGCAGCAAGTTAGGTCTGCCAAAATGTCAGCAGCGG
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 12
caaaccaaaaaaagaaaaaaaaagtagcaattgtatgcacttcatcaaagttaagt----gttttcttgacaatggtctcagtctaagcaattctattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
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-cagtcagcttattcatgtcaa--ttgcgatggtcagt-ctctatcagagtgaatcatcaatttccatgtccatgatttctttttgaactactcaattctgcagATGGACTACATAAACACTTCCCACCCAAATTTTATTGGTGGAAGCAAGGCATTAGAAATAGCTGCACAGCAGACCAAGTCGTCTAGGGTTGCTATACCAG
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA13G32940.1 (Glycine max), 3'ss of exon 12
caaaccaaaaaaagaaaaaaaaagtagcaattgtatgcacttcatcaaagt---taagtgttttct-tgacaatggtctca-gtctaagcaattctattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
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-----tcagtcagcttattcatatcaattgtgatggtcagtctattagagtgaataatcaatttcaatgtccatgatttcttatttgaactactcaattatgcagATGGACTACATAAACACTTCCCACCCAAATTTTATTGGTGGAAGCAAGGCATTAGAAATAGCTGCGCAACAGACCAAGTCCTCTAGGGTTGCTATACCAG
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA08G07160.1 (Glycine max), 3'ss of exon 12
caaaccaaaaaaagaaaaaaaaagtagcaat-tgtatgcacttcatcaaagttaagtgttttcttgacaatggtctca-gtctaagcaattctattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
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-aagacttggcttattaatgtcaatagtgatgtcaatctatctgatgaaaaactt-caattccttgtccataatttcttattcaaactacaccaatttacagATGGACTACATCAACACTTCCCACCCAAATTTTATTGGTGGAAGTAAGGCAATAGAAGCTGCAGTGCAACAAACCAGGTCTTCTAGAGTTGGTTTACCAG
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 12
caaaccaaaaaaagaaaaaaaaagtagcaat-tgtatgcacttcatcaaag--ttaagtgttttcttgacaatggtctcagtctaagcaattctattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
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-aagacttagcttattaatgtcaatagtgatgtcaatctatctgatgaaaaacttaaattccttgtcgataat--ttcttattcaaactacaccaatttacagATGGACTACATAAACACTTCCCACCCAAATTTTATTGGCGGAAGTAAGGCAATAGAAGCTGCAGTGCAACAAACCAGGTCTTCTAGAATTGCTTTACCAG
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 12
-caaaccaaaaaaagaaaaaaaaagtagcaattgtatgcacttcatcaaagttaagtgttttcttgacaatggtctcagtctaagcaattctattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
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gcttatttgtgtcaattgcaatgatcaatctatttaagtgaatcatcaatttcttgtccatggtttcttatttagtta-tttatgctgctcaattatacagTTGAACTACATAAACACTTCCCACCATAATTTTATTGGTGGAAGCAAAGCATTAGAAATTGCCTCGCAACAGACCAAGTCTTCTATGGTTTCTATACCTG
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 12
------------------------------------------------------------------------------------------------caaaccaaaaaaagaaaaaaaaagtagcaattgtatgcacttcatcaaagttaagtgttttcttgacaatggtctcagtctaagcaattctattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
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gtctgtataatgaattgaaaatcctacgttgagttgagtttctctattgtgtataaagagcccagactaatatgttggttgattagggaccttttttaatcttgagcagtgatttcctcgtttttgattgattagtttctttgaactaaagtattag--tgatggta-tcataatttcttgaatgtcgtt-tgcagATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTGGAAGCTGCAATGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTG
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT2G14120.3 (Arabidopsis thaliana), 3'ss of exon 13
caaaccaaaaaaagaaaaaaaaagtagcaattgtatgcacttcatcaaagttaagtgttttcttgacaatggtctcagtctaagcaattctat--tctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
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aggaccatgttctaagttcaagaaaattgattactctcaatt--ttattgattagtgcctcttttaaatttagtttaaaatatttaagtttaccatttgcagATGGATTATATAAACACCTCACACCCAAATTTTATCGGGGGAACTAAAGCCGTGGAGCAAGCAATGCAAACAGTCAAATCTTCTAGGATTCCGCATCCTGMapped 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|122689415|gb|EC938921.1|EC938921EST: AAGGCCTTGAACCGTCAGAGACAATGATTGGGCACATTATTGAAATGGAG ATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCT
genomic: AAGGCCTTGAACCGTCAGAGACAATGATTGGGCACATTATTGAAATGGAGgtatgatgaa ... tattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaagttaagtgttttcttgacaatggtctcagtctaagcaattctattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
tcttgac putative branch site (score: 3)
ttctattct putative PPT
aattctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaaccaaaaaaagaaaaaaaaagtagcaattgtatgcacttcatcaaagttaagtgttttcttgacaatggtctcagtctaagcaattctattctgtagATGGACTACATAAATACTTCACACCCAAATTTTATTGGTGGAAGTAAAGCTGTGGAGATGGCATTGCAACAGATTAAGTCCTCTAGGCTGCCTGTACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - aaaaaaa
- - - - - - - - - - - - - - - - gtatgca
- - - - - - - - - - - - - - - - - - - - -tcatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaagca