Sequence
atgc intronic sequence ATGC exonic sequence...agttaatttttgctttttatttttccaatgaatatgggagcattcttgtgatgtaaatatctggtttaggtttttaattttgctaccttgataattgtagGAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGGGCAAGCAAAGAGGTTGATGTAGAGGTACCTGCAGATGAAGATGAGTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 3'ss of exon 7
agttaatttttgctttttatttttccaa-tgaatatgggagcattcttgtgatgtaaatatctggtttaggt---ttttaattttgctaccttgataat--tgtagGAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGGGCAAGCAAAGAGGTTGATGTAGAGGTACCTGCAGATGAAGATGAGTCAA
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------attttgctgcatagtctggcaaatttctgttgaatagctgctattgagacattatacaaagaaaataacttactatcttgaacatttcatggtcttgcagGATTTGGTGAAGAAGTACTCTGAGTTCATCAATTTCCCCATTTACTTGTGGGCAACCAAGGAGGTTGATGTGGAAGTGCCAGCTGATGAGGATGAGTCAA
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 7
-----agttaatttttgctttttatttttccaatgaatatgggagcattcttgtgatgtaaatatctggtttaggtttttaattttgctaccttgataattgtagGAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGGGCAAGCAAAGAGGTTGATGTAGAGGTACCTGCAGATGAAGATGAGTCAA
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ataaaactcatttaatatacgtttttttgtcaatatctactctca-atatgaaagacgtcaatctcttgctaaa---tatgatttaacaactatttttttcacaGGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGGGCAAGCAAAGAGGTTGATGTGGAGGTTCCCGCTGATGAAGATGATTCC-
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G40320.4 (Glycine max), 3'ss of exon 7
agttaatttttgctttttatttttccaatgaatatgggagc---attcttgtgatgtaaatatctggtttaggtttttaattttgctaccttgataattgtagGAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGGGCAAGCAAAGAGGTTGATGTAGAGGTACCTGCAGATGAAGATGAGTCAA
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aaatctcaattaatatacattttttttgtcaatatctattctcaatataaaagaagccaacctcttgtataa---tatgatttaacaactatgtttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGGGCAAGCAAAGAAGTTGATGTGGAGGTTCCCGCTGATGAAGATGATTCCA
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G24190.2 (Arabidopsis thaliana), 3'ss of exon 7
-agttaatttttgctttttatttttccaatg-aatatgggagcattcttgtgatgtaaatatctggtttaggtttttaattttgctaccttgataattgtagGAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGGGCAAGCAAAGAGGTTGATGTAGAGGTACCTGCAGATGAAGATGAGTCAA
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gaagtggttcagcattattatgaattcagtgcactgcttattcaatatttctgtttatcc-tctcattatggttgctaatgatcat-tgttgtctactacagGAATTGGTGAAGAGATATTCTGAATTCATTAACTTCCCTATCTCCCTCTGGGCTAGCAAAGAGGTTGAAACCGAGGTCCCAGTTGAGGAAGATGAATCAG
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S126_38V6.1 (Physcomitrella patens), 3'ss of exon 7
agttaatttttgctttt-----tatttttccaatgaatatgggagcattcttgtgatgtaaatatctggtttaggtttttaattttgctaccttgataattgtagGAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGGGCAAGCAAAGAGGTTGATGTAGAGGTACCTGCAGATGAAGATGAGTCAA
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---tgacttttaattgaggaagtaactttctggagg-taagggactaaataggtggca-gtgtttttaattttacagtctaattctgttgataatttgagtgcagGAACTCGTGAAGAAGTATTCTGAATTCATCAGCTTCCCTATTTACCTGTGGGCTAGCAAAGAGGTTGATGTTGAAGTGCCCGTTGAAGAGGCCGAAGAGAMapped 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|30297571|gb|CB974365.1|CB974365EST: TGCATCTCAGAGAAGAAGCTGGGGAATACTTGGAGGAGGCCAAATTAAAG GAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGG
genomic: TGCATCTCAGAGAAGAAGCTGGGGAATACTTGGAGGAGGCCAAATTAAAGgtatgcatat ... ataattgtagGAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtgatgtaaatatctggtttaggtttttaattttgctaccttgataattgtagGAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGGGCAAGCAAAGAGGTTGATGTAGAGGTACCTGCAGATGAAGATGAGTCAA
tttaggtttttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttaatttttgctttttatttttccaatgaatatgggagcattcttgtgatgtaaatatctggtttaggtttttaattttgctaccttgataattgtagGAGTTAGTGAAAAGATATTCTGAATTCATCAACTTTCCCATATACCTCTGGGCAAGCAAAGAGGTTGATGTAGAGGTACCTGCAGATGAAGATGAGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - ccaatga
- - - - - - - - - - - - - - - - - - - - - - - - -gatgtaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgctac