Sequence
atgc intronic sequence ATGC exonic sequence...ttagtctttgggtcaatgcatattttaatatttgtcttagtcgttgatagttaatgtgtttgctcattggtcctgtaatgtaaattaattttgattgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 3'ss of exon 10
-ttagtctttgggtcaatgcatattttaatatttgtcttagtcgttgat-agttaatgtgtttgctcattggtcctgta---atgtaaattaattttga--ttgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
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gttggttggttgaattatttg-gttccaagtcggaaattactcatcatcgagtttgtggttctccttatgactcatattagtatttctgttggtttgaacatttcagGTTTGATAGAAAACTGAAGAACACATATGACCACCTTCTTTTCAGCAG
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G410515_T01 (Zea mays), 3'ss of exon 10
-----------------ttagtctttgggtcaatgcatattttaata--tttgtcttagtcg---ttgatagttaatgtgtttgctcattggtcctgtaatgtaaattaattttgattgc---agGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
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gttagttgattgaaatatttggttctgaactg-tgaattgcctgattcccttgtctggattatgcttgttcgtcgagacatttctgaagctttgctgaaaatttctgttgttttgaatacctcagGTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAG
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G36810.1 (Glycine max), 3'ss of exon 9
ttagtc-tttgggtcaatgcatattttaatatttgtcttagtcgttgatagttaatgtgtttgctcat-tggtcctgtaatgtaaattaattttgattgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
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tgggtaacaccaacaaaaataatttgtaatgtttgtggataatgattata-ttataatctccactgttgtggtgacatactatatatgcatgt-gtttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 5
ttagtctttgggtcaatgcatattt-taatatttgtcttagtcgttgatagttaatgtgtttgctcat-tggtcctgtaatgtaaattaattttgattgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
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-ggataacgccaacaaagttaatttgtaatgtttgtggataatgattata-ttattatctccactggtgtgatgacatactatatatgcatcgcatttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ23885 (Selaginella moellendorffii), 3'ss of exon 10
ttagtctttgggtcaatgcatattttaatatttgtcttagtcgttgatagttaatgtgtttgctcattggtcctgtaatgtaaattaattttgat---tgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
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--------------------------------------------------gtaatgcgtttgat-atcggtctgatacgtccagtaactattggtatttgcagGTTTGACAGGAAGCTAAAAAACACTTACGACCATCTTTTATTCAGCAG
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ10018 (Selaginella moellendorffii), 3'ss of exon 9
ttagtctttgggtcaatgcatattttaatatttgtcttagtcgttgatagttaatgtgtttgctcattggtcctgta-atgta--aattaattttgattgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
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--------------------------------------------------gtaatgcgtttgat-atcggtctgatacgtgcagtaactattggtatttgcagGTTTGACAGGAAGCTAAAAAACACTTACGACCATCTTTTATTCAGCAGMapped 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|110392879|gb|EC957437.1|EC957437EST: AGGAGATTGGATAAATTAGTTGGAGTTCCAGTGATCAATGTTCATATATG GTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
genomic: AGGAGATTGGATAAATTAGTTGGAGTTCCAGTGATCAATGTTCATATATGgttagttcta ... ttgattgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatagttaatgtgtttgctcattggtcctgtaatgtaaattaattttgattgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
tgtaatgtaaattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagtctttgggtcaatgcatattttaatatttgtcttagtcgttgatagttaatgtgtttgctcattggtcctgtaatgtaaattaattttgattgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - -caatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaa