Sequence
atgc intronic sequence ATGC exonic sequencegtatttctctgtccaatgcattggggacttctttctcctttcgtcgaaaggtaaatatacaggcttgttcaagaagagctatgataagctgttcatgctcatggcagGTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAAGAAGTTGTGGATCCAAACCTTGAAGTTAAGCCCACAACACGTGCTCTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G026301_T01 (Zea mays), 3'ss of exon 6
gtatttctctgtccaatgcattggggacttctttctcctttcgtcgaaaggtaaatatacaggcttgttcaagaagagctatgataagctgtt-catgctcatg--gcagGTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAAGAAGTTGTGGATCCAAACCTTGAAGTTAAGCCCACAACACGTGCTCTAA
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--------ccatttattgtggcaagtgtgctttctaaaatttgcacgagcaacaattccttgtcagcttc--gatcgttaataatcagctacaacatggagacggtgcagGTACATCTGGTCGAGTGGCTCAAAATGATGGTTGGCACGAGAAGAGCTGAGGAGGTGGTGGATCCTGACATGGAGTTGAAACCTGCCACTCGGGCTCTGA
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 5
------gtatttc-tctgtccaatgcattggggacttctttctccttt-cgtcgaaaggtaaatatacaggcttgttcaagaagagctatgataagctgttcatgctcatggcagGTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAAGAAGTTGTGGATCCAAACCTTGAAGTTAAGCCCACAACACGTGCTCTAA-
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tatgaaatacttaatcagtgctttcagctttctgcttctaacttctttgttttccatgaaaagtgatcaccactgtttgtatggtga-atgggattttgattatcctcatggcaggTGAATCTTGTTGAATGGCTCAAGATGATGGTGGGGACAAGGAGGGCTGAGGAAGTTGTGGACTCAAGGCTTGAAGTGAAACCATCAATACGTGCTTTAAA
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G03290.1 (Glycine max), 3'ss of exon 5
-------gtatttctctgtccaatgcattggggacttctttc--tcctttcgtcgaaaggtaaatatacaggcttgttcaagaagagctatgataa-gctgttcatgctcatggcagGTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAAGAAGTTGTGGATCCAAACCTTGAAGTTAAGCCCACAACACGTGCTCTAA
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gtggctaatttttatgaactctacctgcttgccagttctaaccatgctttccaccagaagtgatcact---gcctttcaaatagctgatgagatattgtttatcttcattatgacagGTTAATCTAGTTGAATGGCTCAAAACGATGGTGGGGACACGGAGAGCTGAAGAAGTAGTGGACTCAAGCCTTCAAGTTAAACCACCACTGCGTGCTTTGA
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatttctctgtccaatgcattggggacttctttctcctttcgtcgaaaggtaaatatacaggcttgttcaagaagagctatgataagctgttcatgctcatggcagGTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAAGAAGTTGTGGATCCAAACCTTGAAGTTAAGCCCACAACACGTGCTCTAA
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gtgaggcttggttaattggtcttg--attttgttaatgtatcggaaaaagttatgaatatgttaatttcctgaaactattgaacgggcttgtatat-----tggcagGTGAATCTTGTTGAATGGCTAAAGATGATGGTTGGAACAAGAAGAGCAGAAGAAGTTGTGGATCCAAGACTTGAACCTAGACCTAGTAAAAGTGCTTTGA
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatttctctgtccaatgcattggggacttctttctcctttcgtcgaaaggtaaatatacaggcttgttcaagaagagctatgataagctgttcatgctcatggcagGTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAAGAAGTTGTGGATCCAAACCTTGAAGTTAAGCCCACAACACGTGCTCTAA
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-------gtagcctaaaatat----gtctgctttgtcaatgtatccaggagt-----tatgaaaatgttaacttggtgttaaaacatg-tgttcttgtt---ggcagGTGAATCTGGTCGAATGGCTAAAGATGATGGTTGGAACAAGAAGAGCTGAAGAAGTTGTTGACTCAAGGATTGAGCCTCCACCCGCTACACGTGCTCTGAMapped 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|110384820|gb|EC949285.1|EC949285EST: AAGCAGTTACTGGAAGGGATCCAGTTGACTATGGCCGGCCTGCTAATGAG GTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAA
genomic: AAGCAGTTACTGGAAGGGATCCAGTTGACTATGGCCGGCCTGCTAATGAGgtatttctct ... ctcatggcagGTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatatacaggcttgttcaagaagagctatgataagctgttcatgctcatggcagGTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAAGAAGTTGTGGATCCAAACCTTGAAGTTAAGCCCACAACACGTGCTCTAA
tatgataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttctctgtccaatgcattggggacttctttctcctttcgtcgaaaggtaaatatacaggcttgttcaagaagagctatgataagctgttcatgctcatggcagGTTAATCTTGTCGAGTGGCTTAAAGTGATGGTAGGGACAAGAAGAGCTGAAGAAGTTGTGGATCCAAACCTTGAAGTTAAGCCCACAACACGTGCTCTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG