Sequence
atgc intronic sequence ATGC exonic sequenceTATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtggagaacgatactttaaaaaactctattcaatctgtcatcattttctttttcgttttgcattctataagaattcattcttattttaaattgtta...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os01g69900.1 (Oryza sativa), 5'ss of exon 4
TATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtg---gagaacgatactttaaaaaactctattcaatctgtcatca-----ttttctttttcgttttgcattctataagaattcattcttattttaaattgtta---------------------------------------------------------------------------
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TATGATGCTATTGCGCGAATGGAAAGGGCAGCCGAGAAAGGAAAAGCCATTGCTGCTGCTGTTGAGGGTGTAGAGAAGCACTGGGGAGCTTCTGTGTCTGgtctgtacttgatcacattgtccttttcctcctgattctgcctgttttaaaaagacattctgttatgttccacctgcttcttatattgtcatgtattggttacttctatgataaactttactgcctgaagttttaggctttttctagcatgcattattaacactttctccatttactttgcag
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G133621_T02 (Zea mays), 5'ss of exon 4
TATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtggagaacgatactttaaaa--------aactctattcaatctgtcatcattttctttttcgttttgcattctataagaattcattcttattttaaattgtta-------------------------------------------------------------------------------
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TATGATGCTATTGCACGGATGGAAAGGGCGGCGGAGAAAGGAAAAGCGATCGCCGCTGCTGTTGAGGGCGTTGAAAAGCATTGGGGAACAGCTGTATCTGgtctgtacttca-gatattccctaccccttctcatcttcattctacttttgaacatgaagttatgcattcaatttcactctaccgttcgcctttatgtttcacatgtatataaactttatgtatgaaagttttccttcatgccttttctagtgtgcccctttaattctctctccgtttattttgcag
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA04G37370.3 (Glycine max), 5'ss of exon 5
------TATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtggagaacgatactttaaaaaactctattcaatctgtcatcattttctttttcgttttgcattctataagaattcattcttattttaaattgtta----------------------------------
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TGTTTGCATGATGCCATTGCCCGTATGGAAAGGGCAGCTGAGAAAGGAAAAGCAATTGCAGCAGCTGTTGAAGGAGTTGAAAAACACTGGGGAACATCAGgttctgctttgtagactatt-tcctttttcatgctttgctctttgatttgtatgatggtgtgccggaaaacattgagcatagttaggttcacagtttttaatattaggctctatttcatactaatttggcctttgaacag
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA06G17720.1 (Glycine max), 5'ss of exon 3
------TATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtggagaacgatactttaaaaaact--ctattcaatctgtcatcattttctttttcgttt-tgcattctataagaattcattcttattttaaattgtta----------------------------------
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TGTTTGCATGATGCCATTGCCCGTATGGAAAGGGCTGCTGAGAAAGGATAAGCAATTGCAGCAGCTGTTGAAGGAGTTGAAAAACACTGGGGAACATCAGgttctgctttgtagactgtttcctttttcatgctttgctctttgatttgt-atgatggtgtactgggaaaacattatcagcatagttaggttcacagtttttaatatcaggctctatttcatgctaatttggcctttgcacag
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT5G63490.1 (Arabidopsis thaliana), 5'ss of exon 5
TATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtggagaacgatactttaaaaaactctattcaatctgtcatcattttctttttcgttttgcattctataagaattcattcttattttaaattgtta
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TATGATGCAATTGCTCGTATGGAGAGGGCTGCTGAGAAAGGTAAGGCAATAGCTGCTGCTGTTGAAGGTGTTGAAAAAAGTTGGGGGACAAACACTTCAGgtaggcgaggaac--tgctgcaa---------tctcatttgttgt----ttgcttcttattttgaatgtccaaaatgttgattttttcatgtag------
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT5G50530.1 (Arabidopsis thaliana), 5'ss of exon 5
TATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgt-tggtggagaacgatactttaaaaaactctattc-aatctgtcatcattttctttttcgttttgcattctataagaattcattcttattttaaattgtta
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TATGATGCTATTGCCCGCATGGAAAGATCAGTTGAGAAGGGTAAGGCTATTGCTGCGGCTGTTGAAGGCGTTGAAAAGAACTGGGGAACATCTATTGCTGgtatgtttaaaaatatggaattgagtatctccatttgaatccatcacaaatgtcttcttg--catgcctctgatggcgtttttgttggatatacgatag---
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: PP1S119_11V6.1 (Physcomitrella patens), 5'ss of exon 4
TATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtggagaacgatactt-taaaaaactctattcaatctgtcatcattttctttttcgttttgcattctataagaattcattcttattttaaattgtta---------------------------------------------------------------------------
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TATGATGCTATTGCTCGCATGGAGCGGGCTGCTGAAAAAGGCAATGCAATTGCAGCTGCTGTTGAATCTGTGGAGCGTGAGTGGGGCAATAATGCTTCAGgt-----aagcatggtacttctcgtaatcagcacaaaatgtgtttatagattcacaccatatttgtgatgaataagtggatgttttcttggtacgctcttctcgctgctttgtcttatgacgcgattgatcaaagatattgagtttcacgagtcgttggctgcttggttctgtcag
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: PP1S86_24V6.1 (Physcomitrella patens), 5'ss of exon 4
TATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtggagaacgatactt---taaaaaactctat----tcaatctgtcatcattttctttttcg---------ttttgcattctataagaattcattctt--attttaaattgtta---------------------------------------------------
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TACGATGCTATTGCTCGCATGGAGCGGGCTGCTGAGAAAGGCAATGCTATTGCAGCTGCTGTTGAATCTGTTGAGCGTGAGTGGGGCAACAATGCTACTGgtgagtttttcacgcatcttaattaacaaaatttatgttatgaaatttttaccgtgtacaagtccggggaatatatttttatttgtatattaatctgcttcttcattttatgatgctatttattgagttcgtagaatcttatgagttgttgggtgcttgttgatgccagMapped 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|26264368|gb|CA815431.1|CA815431EST: TGCTGCTGCTGTTGAAGGAGTTGNNNNNNNTTGGGGGACATCTCTCTCTG GTCCTAGCACATTCATTGAGACACTTCGAGAGAGGATGTTTAGGCCTGCTT
genomic: TGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtggag ... ttttgtacagGTCCTAGCACATTCATTGAGACACTTCGAGAGAGGATGTTTAGGCCTGCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATGATGCTATTGCTCGAATGGAGAGGGCAGCTGAAAAGGGAAAAGCCATTGCTGCTGCTGTTGAAGGAGTTGAAAAAAATTGGGGGACATCTCTCTCTGgttggtggagaacgatactttaaaaaactctattcaatctgtcatcattttctttttcgttttgcattctataagaattcattcttattttaaattgtta
- - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggagaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataagaa