Sequence
atgc intronic sequence ATGC exonic sequencegtatccacatcaaattctcaaaacattccgatctgggggtgtcctaacaatttggatgaaaaaaatgcagGACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATCAAGTACGAGATAAGAAACAACAGAAATGGGTACAAAGCAGGAGCTCTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g03990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G37480.1 (Glycine max), 3'ss of exon 2
--------gtatccacatcaaattctcaaaacattccgatctgggggtgtcct----aacaatt-------tggatgaa-aaaaatgcagGACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATCAAGTACGAGATAAGAAACAACAGAAATGGGTACAAAGCAGGAGCTCTCA
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gttaattagca-ctaaataaatgttccatgtgattacgaattttggatatcattctgagtcatttttttggtgactgaatacaaatgcagGAGTTGGTGCAGCTTGAATGCCAAAGATGGGCAAGCAAAGGGGTGAACATAAAGTATGAGGTTAGGGACAATAGGAATGGGTACAAAGCAGGGGCTCTCA
upper sequence: Vv08s0007g03990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G34800.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------------------gtatccacatcaaattctcaaaacattccgatctgggggtgtcctaacaat--ttggatgaaaaaaatgcagGACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATCAAGTACGAGATAAGAAACAACAGAAATGGGTACAAAGCAGGAGCTCTCA
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gtaaattagcactaaatgttccatgtgaatgatgttgctatatattaaaaatatactataactgaaccgtactgatgatgtgattgtgaatttggaatcattctgaatcattttttttttgtgtgtggctgaataatacaaatgcagGAGTTGGTGCAGCTTGAATGCCAAAGATGGGCAAGCAAAGGGGTGAACATAAAGTATGAGGTTAGGGACAATAGGAATGGGTACAAAGCAGGGGCTCTCA
upper sequence: Vv08s0007g03990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G21440.1 (Glycine max), 3'ss of exon 3
----------------------------gtatccacatcaaattctcaaaacattccg---atctgggggtgtc----ctaacaatt-----tggatgaaaaaaatgcagGACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATCAAGTACGAGATAAGAAACAACAGAAATGGGTACAAAGCAGGAGCTCTCA
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gtacgcatgttattagaatttgggtttacgacataagtcatatttctagccgacgagggatatgtgaggggattgattgtgggaattgtgaatgaatgaacaaaatgcagGAGCTGGTGCAAATGGAATGTAGTAGATGGGCGAGCAAAGGGGTGAACATAAAGTACGAGGTGAGGGACAACAGAGACGGGTACAAAGCAGGGGCTCTGA
upper sequence: Vv08s0007g03990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G07560.1 (Glycine max), 3'ss of exon 3
-------------------------------------------gtatccacatcaaattctcaaaacattccgatctgg-gggtgtcctaacaatttggatgaaaaa-aatgcagGACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATCAAGTACGAGATAAGAAACAACAGAAATGGGTACAAAGCAGGAGCTCTCA
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gtatgcatgttattggaatttgggttaaactccacaaaatggactttatatataaactatgtacattagtcatatttagtgagtgagtggattgattgtgggaattgtgaatcagGAGCTGGTGCAAATGGAATGTAGTAGATGGGCGAGCAAAGGGGTGAACATAAAGTACGAGGTGAGGGACAACAGAGACGGGTACAAAGCAGGGGCTCTGA
upper sequence: Vv08s0007g03990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ35401 (Selaginella moellendorffii), 3'ss of exon 2
gtatccacatcaaattctcaaaacattccgatctgggggtgtcctaacaatttggatgaaaaaaatgcagGACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATCAAGTACGAGATAAGAAACAACAGAAATGGGTACAAAGCAGGAGCTCTCA
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--gtttgcctagagcttccac--ctcttggaactatgtggatggatgtgatt-ggatgttttacacgcagAATCTGGTGGAGCTCGAGTGCCAGAGATGGGCGAGCAAAGGGGTGAACATCAAGTATGAGATCCGGGACAACAGGAATGGCTACAAGGCGGGGGCGCTCAMapped 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|34543461|gb|CF511693.1|CF511693EST: ATCGTATCATAATTCAAGTCCTGGACGATTCAACCGACCCCACAATCAAG GACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATC
genomic: ATCGTATCATAATTCAAGTCCTGGACGATTCAACCGACCCCACAATCAAGgtatccacat ... aaaaatgcagGACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcaaaacattccgatctgggggtgtcctaacaatttggatgaaaaaaatgcagGACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATCAAGTACGAGATAAGAAACAACAGAAATGGGTACAAAGCAGGAGCTCTCA
tcctaac putative branch site (score: 1)
atgaaaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatccacatcaaattctcaaaacattccgatctgggggtgtcctaacaatttggatgaaaaaaatgcagGACTTGGTGGAGCTAGAATGTCAGAGATGGGCAAGCAAAGGCATAAACATCAAGTACGAGATAAGAAACAACAGAAATGGGTACAAAGCAGGAGCTCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT