Sequence
atgc intronic sequence ATGC exonic sequence...gttctttagtttctaggaagcattaatttcacaaatactgactattttagattctttcctcatttggaacttaaatgggatgtaatgttttcaaatctagGCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTTTTTGAAGGAAAGGGTGCTGTTGAAACATTTAACCACACACATGATGTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g06030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G060817_T02 (Zea mays), 3'ss of exon 3
------------------------------------------------------------------gttctttagtttctaggaagcattaatttcacaaatactgactattttagattctttcctcatttggaacttaaatgggatgtaat---gttttcaaatctagGCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTTTTTGAAGGAAAGGGTGCTGTTGAAACATTTAACCACACACATGATGTTC
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gtaagagaatgctctgatatactttgtatgactttctttttagaactgcaattagttacaaaagtcactactttatgattctgcaggaacattttgttacat-ttcagtattttctgttctgtatgttatgtaagttcatcaaagcaataactgggctttgtttggtagGCTATTCTGGCTTCATCATCATGGGACAAAACTGTTCGCCTCTGGGATGTCTTTGAGAGCAAGGGTGCAGTGGAAACTTTTCAGCACTCACACGATGTTC
upper sequence: Vv09s0002g06030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G15440.2 (Arabidopsis thaliana), 3'ss of exon 4
------------------------gttctttagtttctaggaagcattaatttcacaaatactgactatttt--agattctttcctcat----ttggaacttaaatgggatgtaatgttttcaaatct----------agGCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTTTTTGAAGGAAAGGGTGCTGTTGAAACATTTAACCACACACATGATGTTC
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gtaaagaaactgtcatagtctcatacttcttttagtcaaaatacaatttgcttcgtgcctctgaacaattatgtgaacttctgccttatggtgttataacttccatgccttatctagttcatatatttctttctctgcagCAACTTTTAGCTTCATCCTCATGGGACTATACAGTTCGGTTGTGGGATGTGTTTGCTAGCAAAGGCACCGTGGAAACGTTTCGACACAACCACGATGTTC
upper sequence: Vv09s0002g06030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S87_39V6.1 (Physcomitrella patens), 3'ss of exon 3
gttctttagtttctaggaagcattaatttcacaaatactgactattttagattctttcctcatttggaacttaaatg-ggatgtaatgttttcaaat----ctagGCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTTTTTGAAGGAAAGGGTGCTGTTGAAACATTTAACCACACACATGATGTTC
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-----taaatggtatgtgatcactcctgtagccacctttcaacatctcctgctatctgctgaaattaaccgctagcgtggatgtgctctgtattactgttgccagGAAATGCTAGCATCATCGTCTTGGGATAAGACTGTGAAGATTTGGGATGTTTTTGAAGGGAAGGGTAATGTTGAAACTTTCACCCACACACATGATGTGC
upper sequence: Vv09s0002g06030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ09396 (Selaginella moellendorffii), 3'ss of exon 4
gttctttagtttctaggaagcattaatttcacaaatactgactattttagattctttcctcatttggaacttaaatgggatgtaatgttttcaaatctagGCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTTTTTGAAGGAAAGGGTGCTGTTGAAACATTTAACCACACACATGATGTTC
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------------------------------gtgcgtactc-ctacgcgacaatgctttccactttctaac--------------acgtcttga----cagGAATTCTTGGCTTCCTCGTCATGGGACAAAACCGTGCGCTTGTGGGATGTGTTTGAAGGCAAGGGTGGGGTTGAAGCCTTCACTCATACGCATGACGTGC
upper sequence: Vv09s0002g06030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ34955 (Selaginella moellendorffii), 3'ss of exon 4
gttctttagtttctaggaagcattaatttcacaaatactgactattttagattctttcctcatttggaacttaaatgggatgtaatgttttcaaatctagGCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTTTTTGAAGGAAAGGGTGCTGTTGAAACATTTAACCACACACATGATGTTC
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------------------------------gtgcgtactc-ctacgcgacaatgctttccactttctaac--------------acgtcttga----cagGAATTCTTGGCTTCCTCGTCATGGGACAAAACCGTGCGCTTGTGGGATGTGTTTGAAGGCAAGGGTGGGGTTGAAACCTTCACTCATACGCATGACGTGCMapped 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|30305786|gb|CB982580.1|CB982580EST: TTAGCGGTCATGAAGGTCCTGTTCATGGGTTGATGTTTTCTCCTACAAAT GCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTT
genomic: TTAGCGGTCATGAAGGTCCTGTTCATGGGTTGATGTTTTCTCCTACAAATgtgagttgac ... tcaaatctagGCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagattctttcctcatttggaacttaaatgggatgtaatgttttcaaatctagGCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTTTTTGAAGGAAAGGGTGCTGTTGAAACATTTAACCACACACATGATGTTC
tgttttc CT-rich tract
taatgttttcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctttagtttctaggaagcattaatttcacaaatactgactattttagattctttcctcatttggaacttaaatgggatgtaatgttttcaaatctagGCAATCTTAGCTTCATCTTCATGGGACAAGACTGTTCGATTGTGGGATGTTTTTGAAGGAAAGGGTGCTGTTGAAACATTTAACCACACACATGATGTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - -ggaagca
- - - - - - - - - - - - - - -cacaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacttaaa