Sequence
atgc intronic sequence ATGC exonic sequence...ctccaagtgtgacatgattcgtttcctgatttcttgctttccactcgcaatgtattcttacattttttttatggggaactgatctggtttatgaatgcagATGCTTTGAGTACATTGAAGAAATGATCCATAAGCAGGAGCCTCTTGTCAACGTCCTGCGCCTTCTCATTTTATTTTCAATTACAAATTCAGGGTTACCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04720.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os04g14654.3 (Oryza sativa), 3'ss of exon 15
--ctccaagtgtgacatgattcgtttcctgatttcttgctttccactcgcaatgtattcttacattttttttatggggaactgatctggtttatgaatgcagATGCTTTGAGTACATTGAAGAAATGATCCATAAGCAGGAGCCTCTTGTCAACGTCCTGCGCCTTCTCATTTTATTTTCAATTACAAATTCAGGGTTACCA
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gagtcctgcttttacgtcattttagataaaataactgccatcattttttttatttatttcccctgaattcatgtaacaataatatctaactcatc--cccagATGTTTTGAATACATTGAAGAGATGATACATAAGCAGGAGCCTATTGAAAATGTTCTTCGCCTTCTAGTGTTACTTTCACTTACAAATGCTGGGTTGCCA
upper sequence: Vv13s0019g04720.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G003734_T01 (Zea mays), 3'ss of exon 15
ctccaagtgtgacatgattcgtttcctgatttcttgctttccactcgcaatgtattcttacattttttttatggggaactgatctggtttatg----aatgc-----agATGCTTTGAGTACATTGAAGAAATGATCCATAAGCAGGAGCCTCTTGTCAACGTCCTGCGCCTTCTCATTTTATTTTCAATTACAAATTCAGGGTTACCA
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---------nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncccggaagaatcagcttgattcgtattctatttctccctagATGCTTTGAGTACATTGAGGAGATGATACATAAGCAGGAAGTTATTGAAAACGTCCTTCGCCTTTTGGTGTTACTTTCTCTTACAAATGCCGGGCTTCCA
upper sequence: Vv13s0019g04720.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA10G35210.2 (Glycine max), 3'ss of exon 14
--ctccaagtgtgacatgattcgtttcctgatttcttgctttccactcgcaatgtattcttacattttttttatggggaactgatctggtttatgaatgcagATGCTTTGAGTACATTGAAGAAATGATCCATAAGCAGGAGCCTCTTGTCAACGTCCTGCGCCTTCTCATTTTATTTTCAATTACAAATTCAGGGTTACCA
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atttgctgttgatgcattatg-gttcacagattgctgcatgcctgcatgta-cacaacttaaggtttttataatatgaagcttaggtcattcatatatgcagATGCTTTGAGTATATTGAAGAACTGATCCATAAGCAGGAGCCTTTGACAACAGTCTTACGCCTTCTAATCCTATTTTCGATTACTAATTCTGGGTTGCCA
upper sequence: Vv13s0019g04720.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT3G54860.1 (Arabidopsis thaliana), 3'ss of exon 14
----------------------------------------------------------------ctccaagtgtgacatgattcgtttcctgatttcttgctttccactcgcaatgtattcttacattttttttatggggaactg-------atctggtttatgaatgcagATGCTTTGAGTACATTGAAGAAATGATCCATAAGCAGGAGCCTCTTGTCAACGTCCTGCGCCTTCTCATTTTATTTTCAATTACAAATTCAGGGTTACCA
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gtaagtttctttttagagaaacacttattgtattttaatacttccattcaagaagttttcatgattctttctgttacaagggatgtggaa-aacatgttactttgatagcataatggatattgaaatctatgatataattgattattactaactcttgtttttaaatgcagATGCTATGAGTACATAGAAGAGATGATCCATAAACAGGAGCCTCTCACTAATGTCTTACGTCTATTAGTCTTATTTTCTGTTACAAACTCAGGGTTACCGMapped 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|30132609|gb|CB917948.1|CB917948EST: GGACGACTTGACATGGAACACACAATTGTAGAGGCTCAGAGTTATGATAT ATGCTTTGAGTACATTGAAGAAATGATCCATAAGCAGGAGCCTCTTGTCAA
genomic: GGACGACTTGACATGGAACACACAATTGTAGAGGCTCAGAGTTATGATATgtaagttaaa ... atgaatgcagATGCTTTGAGTACATTGAAGAAATGATCCATAAGCAGGAGCCTCTTGTCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgcaatgtattcttacattttttttatggggaactgatctggtttatgaatgcagATGCTTTGAGTACATTGAAGAAATGATCCATAAGCAGGAGCCTCTTGTCAACGTCCTGCGCCTTCTCATTTTATTTTCAATTACAAATTCAGGGTTACCA
tgtattcttacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctccaagtgtgacatgattcgtttcctgatttcttgctttccactcgcaatgtattcttacattttttttatggggaactgatctggtttatgaatgcagATGCTTTGAGTACATTGAAGAAATGATCCATAAGCAGGAGCCTCTTGTCAACGTCCTGCGCCTTCTCATTTTATTTTCAATTACAAATTCAGGGTTACCA
ctccaag
- - - - - - catgatt
- - - - - - - - - - - ttcctga
- - - - - - - - - - - - - - - ttcttgc
- - - - - - - - - - - - - - - - - - - -tccactc
- - - - - - - - - - - - - - - - - - - - - - - -caatgta