Sequence
atgc intronic sequence ATGC exonic sequencegtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g02670.2 (Oryza sativa), 3'ss of exon 7
gtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaa--gattgcctgaaatat--cagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
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-----------gtaatt--ctaaggacagtgtc-ctggcagatttgattctagaaacattttggcattttgccaagggtgtttatatgttgctccatttaattgttccagAGATAGCAAACTGACAAGATTGCTAAGAGACTCATTGGGAGGGAAAACAAAGACTTGCATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAG
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G024576_T01 (Zea mays), 3'ss of exon 5
gtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
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---------------gtaaccctaagaatggcccttgaca-----gctttgattttag--taacacgttgctcaatgatggtttatgtgtatctatttgtt-tcagAGATAGTAAACTGACAAGGTTGCTGAGGGATTCATTGGGAGGGAAAACAAAGACTTGCATTATTGCTACAATATCACCTTCAGTATATTGTTTGGAAGAG
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G40580.1 (Glycine max), 3'ss of exon 6
gtatgaactgc-ataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagat-tgcctga----aatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
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gtaagagtaactgcaacttttctagtcaattctcaatttcattt---------ttcttaa-ttatttcctggagtgattttattattaagatatatcttattattatatcagGGATAGCAAATTAACCAGATTGTTGAGGGATTCTTTGGGTGGTAAAACCAAAACGTGCATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAA
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G04830.1 (Glycine max), 3'ss of exon 5
gtatgaactgc-ataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
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gtatgagtaactgcaacttttcttgtcaattctcaatttcatttttttttt-attattttctgagtgattttattattaagatatatcttattatt----atatcagAGATAGCAAATTAACCAGATTGTTGAGGGATTCTTTGGGTGGTAAAACCAAAACGTGCATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAA
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G15520.2 (Glycine max), 3'ss of exon 5
gtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
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gtatgaatggc-tacc--gttcttctggttatggt-aacttttgat-tctattttcaaacctagagaaaaatgcttttgtattattaagatgtcccattatatcagGGATAGCAAATTAACAAGACTGTTGAGGGATTCCTTGGGCGGTAAAACCAAGACATGCATAGTTGCTACGATATCACCTTCTATTCACTGTCTGGAAGAA
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G07910.1 (Glycine max), 3'ss of exon 5
gtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
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gtatgaatggc-tacc--gttctcctggttatggt-aacttttgat-tctactttcaaacctagagaaaaatgcttttgtattattaagatgtcccgttatgtcagGGATAGCAAATTAACAAGACTGTTAAGGGATTCCTTGGGCGGTAAAACCAAGACATGCATCGTTGCTACGATATCACCTTCTATTCACTGTCTGGAAGAA
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G28620.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
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gtaacagaaagattctgccttcaatatctctctctcggga----agttttgagacaagatctaatgtttctaaccatgtgattatacacattt----aaatttcagAGAAAGCAAGTTGACAAGATTATTGAGAGACTCTTTGGGAGGAAAAACAAAAACATGTGTAATTGCTACAGTTTCACCCTCTGTTCATTGCCTGGAAGAA
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S6_143V6.1 (Physcomitrella patens), 3'ss of exon 6
gtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
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----gtagagcattcttaattgggaaaaacatt-tatgcctctagaatgaaggatgagctttcgtgatggctgttcctcacaattcactcttctttaatgtcacagAGATAGTAAGCTGACAAGATTGTTAAGGGATTCCTTGGGAGGAAAGACAAAAACGTGTATAATTGCCACCGTCTCGCCCTCAGTTCCTTGTCTCGAAGAGMapped 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|122690251|gb|EC949944.1|EC949944EST: GGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAG GGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAA
genomic: GGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactg ... gaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
gtttgat putative branch site (score: 5)
taattaaaaagatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAAAACATGCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA