Sequence
atgc intronic sequence ATGC exonic sequence...tcatttttgcatctagtttcagaatttagtttgtgaattaagaatggtatgtagtcctgtggagccaattatgacaagttgcatatgatttaatatgcagGTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 8
--tcatttttgcatcta-gtttcagaatttagtttgtgaattaagaatggtatg-tagtcctgtggagccaattatgacaagttgcatatgatttaatatgcagGTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAA
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attcttctctgctgcaacatcgtgttatgtatcttttgcttgagtaatagagtgacagttgctttcaactcttcctgactgg--gacccttatttggttt--agGTATTTGGGCTGGAATGAAGACTGTGAGATACTTTGATGGGAGGACATATGAATGGGTTGGTTTGAGTCGTCAACCCAATATTATCAGTAAG
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 11
tcatttttgcatctagttt-cagaatttagtttgtgaattaagaatggtatgtagtcctgtgg-agccaattatgacaagttgcatatgatttaatatgcagGTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAA--------
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--agtgtttttttgagtttgcactattgctgaaattaatgctcttttggatttgaaattgtggcagccgattgtaacatcttttacttggtttattatgcagGAATTTGGGCAGGAATGCATACTGTTAGATATTTTGATGGGAAAACATACAAATGGGTTGGTCTAAGCCAGCAGCCTAATATAATAGGAAAAGTATGTTT
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 9
---tcatttttgcatctagtttcagaatttagtttgtgaattaagaatggtatgtagtcctgtggagccaattatgacaagttgcatatgatttaatatgcagGTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAA
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agtgtttttttgtgtttgcactattgctgaaattaatgcccttttg--gatttgaaattgt-tacagccaattgtaacatcttttaatttggttaatatgcagGAATATGGGCAGGAATGCATACTGTTAGATATTTTGACGGGAAAACATACAAATGGGTTGGTCTAAGCCAGCAGCCTAACATAATAGGAAAA
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 9
tcatttttgcatctagtttcagaatttagtttgtgaattaagaatggtatgtagtcctgtggagccaattatgacaagttgcatat---gatttaat-atg-cagGTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAA
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--------gtat---gattcttaagctaccttgctattcta------tatgtagtgcttttaaacatgttatggataacagcttttcttgttttaatcatggtagGTATCTGGGCAGGAATGTATACAGTTCGATATTTTGATGGAAAAACATATGAGTGGGTTGGCATTAGCCGCCAGCCTAACATTATTGGCAAAMapped 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|110360098|gb|EC922718.1|EC922718EST: GTGTTGGTGGGACAGTATTATCCTCGACATTTTAGTCTGCAATTGGTTTG GTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACG
genomic: GTGTTGGTGGGACAGTATTATCCTCGACATTTTAGTCTGCAATTGGTTTGgtaagatccc ... taatatgcagGTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtatgtagtcctgtggagccaattatgacaagttgcatatgatttaatatgcagGTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAA
atttaat putative branch site (score: 4)
atatgatttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatttttgcatctagtttcagaatttagtttgtgaattaagaatggtatgtagtcctgtggagccaattatgacaagttgcatatgatttaatatgcagGTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAA
- - - - gcatcta
- - - - - - - - - - - - - - - - - - - - - - -ggtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggagcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatatg