Sequence
atgc intronic sequence ATGC exonic sequence...ttttgcaaaatggagtttttttggctgtgtttgtgtatgtttttctcttgctataagcattaccggatattttactacaagacataaggtcctttttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAGTGATTGGAAGCATTACGTTAGGAGGAAACCTAATGTGGTTAAAAGACGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os08g31840.2 (Oryza sativa), 3'ss of exon 2
ttttgcaaaatggagtttttttggctgtgttt-gtgtatgtttttctcttgctataagcattaccggatattttactacaagacataaggtcctttttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAGTGATTGGAAGCATTACGTTAGGAGGAAACCTAATGTGGTTAAAAGACGT
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acttttgtaatgcatctagtttacttttgtaaagtgggtactggcttactgtgcattacttcactaacctcacagctgacatatttttgggtaaccat-agGGACGGAAGGAGGATAAAAAAATGGAGGAAGATGATAGGTGTTGGTGGTAGTGACTGGAAACATTATGTTAGAAGAAACCCTCATGTGGTTAAAAGAAGA
upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G047223_T03 (Zea mays), 3'ss of exon 2
--ttttgcaaaatggagtttttttggctgtgtttgtgtatgtttttctcttgctataa-gcattaccggatattttactacaagacataag-gtcctttttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAGTGATTGGAAGCATTACGTTAGGAGGAAACCTAATGTGGTTAAAAGACGT
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acttgtgtaaatcag----ttattgtcttacttcaccttcctatttctctaaataaactaccttacaagtgcttttattctatttcttttttatgttgctatagGGAGGAAAGAAGGATAAGAAAATGGAGGAAGATGATAGGTGTTGGTGGTAATGACTGGAAGCATTATGTTAGAAGGAACCCTCATGTGGTTAAAAGGCGA
upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G07090.1 (Glycine max), 3'ss of exon 1
-ttttgcaaaatggagtttttttggctgtgtttgtgtatgtttttctcttgc-------tataag-cattaccggatattttac-tacaagacataaggtcctttttcag-
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gtatttttgtttttcacctgttgatttgtgtttttctgtgttttaagcatgaatgagtatataaaatatggccagtgattttacctgtattaccatttacctctcatcagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATTTAAGGAGAAAACCTCATGTTGTTAAA------
upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G05360.1 (Glycine max), 3'ss of exon 2
-ttttgcaaaatggagtttttttggctgtgtttgtgtatgtttttctcttg--------ctataagcattaccggatattttactacaagacataaggtccttt-------ttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAGTGATTGGAAGCATTACGTTAGGAGGAAACCTAATGTGGTTAAAAGACGT
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gtatttttgttttacacctattgatttgtgtttttctgtgttttaagcatgagtgagtataaaaaatgtggccattggttttacctgtatttccatttacctctcattagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATCTAAGGAGAAAACCTCATGTTGTGAAA------
upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G02460.1 (Arabidopsis thaliana), 3'ss of exon 2
ttttgcaaaatggagtttttttggctgtgtttgtgtatgtttttctcttgctataagcattaccggatattttactacaagacataaggtcctttttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAGTGATTGGAAGCATTACGTTAGGAGGAAACCTAATGTGGTTAAAAGACGT
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-----------gtatgtcctgagggagcgaataattttaaaagaatatgattgagagagtgagagtgtgtttttgt--------tgttggctatctatagAGAGGAGAGAAAGGTGAGAAAATGGAGGAAGATGATTGGGGTTGGAGGGAGTGATTGGAAGCATTATGTTAGGAGAAAACCTAATGTTGTCAGAAGGCGT
upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G15930.1 (Arabidopsis thaliana), 3'ss of exon 2
-ttttgcaaaatggagtttttttggctgtgtttgtgtatgtttttctct-tgctataagcattaccggatattttactacaagacataaggtcctttttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAGTGATTGGAAGCATTACGTTAGGAGGAAACCTAATGTGGTTAAAAGACGT
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gtatgtcaatgtgaaaaagtgattgttttgtcctttgttgttgttgaggatagtatat-tgtgctttgttatttaaccatggatgctaaattccttt---agGGAGGAGAAGAGAGTGACAAAATGGAGGAAGATGATTGGAACTGGGGGTAGTGATTGGAAGCATTACGTTAGGAGAAAACCTCATGTTGTCAAGAGGCGGMapped 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|161719620|gb|FC067048.1|FC067048EST: ATGACCATGAGCG GGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAG
genomic: ATGACCATGAGCGgtatgctttc ... cctttttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgctataagcattaccggatattttactacaagacataaggtcctttttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAGTGATTGGAAGCATTACGTTAGGAGGAAACCTAATGTGGTTAAAAGACGT
tcctttttc CT-rich tract
atattttactacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgcaaaatggagtttttttggctgtgtttgtgtatgtttttctcttgctataagcattaccggatattttactacaagacataaggtcctttttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAGTGATTGGAAGCATTACGTTAGGAGGAAACCTAATGTGGTTAAAAGACGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
ttttgca
- - - -aaatgga
- - - - - - - - - - -tggctgt
- - - - - - - - - - - - - - - - gtgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -cattacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaagac