Sequence
atgc intronic sequence ATGC exonic sequence...atgctatatttatgtttctcttttgctgccaacatagccaaactactatatctaaatattcgttgtatgagatatattaactaatatcatttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCACAGAGTGGTCGTCTTGGGGCAGTTACAATTGCTACCAATATGGCAGGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g21820.1 (Oryza sativa), 3'ss of exon 8
atgctatatttatgtttctc---ttttgctgccaacatagccaaactactatatctaaatat-tcgttgtatgagatatattaactaatatcatttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCACAGAGTGGTCGTCTTGGGGCAGTTACAATTGCTACCAATATGGCAGGTC
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----tctgattatgtgcttcaaactttggaagccacaagctcatgatttcatttcctaacacatcgaaaatcgtctcaagttttactttgaatttgtactgtagGTCCTCAATGCTAAACCAGAGAATGTAGAGAGGGAGGCAGAAATTGTAGCTCAGAGTGGACGCCTTGGTGCAGTGACAATTGCCACCAATATGGCGGGAC
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 10
atgctatatttatgtttctcttttgctgcc-aacatagcca--aactactatatctaaatattcgttgtatgagatatattaactaatatcatttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCACAGAGTGGTCGTCTTGGGGCAGTTACAATTGCTACCAATATGGCAGGTC
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-catccatttgaaagaactataatgaagcttaattttgcaaccactttttttgtcttaatttttttgggtataaatatagtg--caatatgtattgtttctagGTTCTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCACAGAGTGGTCGTCTTGGGGCAGTGACAATTGCTACCAATATGGCTGGTC
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 10
atgctatatttatgtttctcttttgctgcc-aacatagcca--aactactatatctaaatattcgttgtatgagatatattaactaatatcatttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCACAGAGTGGTCGTCTTGGGGCAGTTACAATTGCTACCAATATGGCAGGTC
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-catccatttgaaagaactataatgaagcttaatcttgcaaccactttttttgtcttaatttttttgggtataaaagtagtg--caatatgtattgtttctagGTACTTAATGCAAAACCAGAAAATGTTGAGAGGGAAGCAGAAATTGTAGCACAGAGTGGTCGTCTTGGGGCAGTGACAATTGCTACCAATATGGCTGGTC
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 9
-atgctatatttatgtttctcttttgctgccaacatagccaaactactatatctaaatattcgttgtatgagatatattaactaatatcatttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCACAGAGTGGTCGTCTTGGGGCAGTTACAATTGCTACCAATATGGCAGGTC
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aatggtgtatgtaaaga-caaaccaataaaaaaatcaaatcaattatattccttgtacaagaatactgacagatgatgttatatatatgttgtacaaaaagGTCCTCAATGCCAAGCCAGAAAATGTGGAGAGGGAAGCTGAAATTGTAGCACAAAGTGGCCGTTTAGGGGCAGTAACAATTGCCACAAATATGGCAGGGC
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: PP1S9_141V6.1 (Physcomitrella patens), 3'ss of exon 9
---------------------------------------------------------------------------------atgctatatttatgtttctcttttgctgccaaca---tagccaaactactatatctaaatattcgttgtat-------gagatatattaactaatatc------atttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCACAGAGTGGTCGTCTTGGGGCAGTTACAATTGCTACCAATATGGCAGGTC
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gtgacattcgtgttcttttaagtaggcgcgaatcacctaaaaattttagaattaggattaggttaattttctagctaatcatcataataatttcgtgcgcagaagggaacctggaggctggccagact-ctaattcagaagagacggtgcattttttttaaagcttcccactgaatgtttgagatgattccttgcagGTACTGAATGCGAAACCAGAAAACGTCGAAAGAGAAGCTGAAATTGTTGCACAGAGCGGGCGCTTAGGAGCCGTGACAATAGCTACGAACATGGCTGGTCMapped 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|110687042|gb|EE064104.1|EE064104EST: AAAGTGACTCATTGTCAGAACAGTTGAATGAAGCTGGAATTCCCCATGAG GTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCA
genomic: AAAGTGACTCATTGTCAGAACAGTTGAATGAAGCTGGAATTCCCCATGAGgtgaggtcca ... ttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctatatctaaatattcgttgtatgagatatattaactaatatcatttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCACAGAGTGGTCGTCTTGGGGCAGTTACAATTGCTACCAATATGGCAGGTC
ttgtatgagatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgctatatttatgtttctcttttgctgccaacatagccaaactactatatctaaatattcgttgtatgagatatattaactaatatcatttaattaaagGTTCTCAATGCGAAACCAGAGAATGTAGAGAGAGAAGCAGAAATTGTTGCACAGAGTGGTCGTCTTGGGGCAGTTACAATTGCTACCAATATGGCAGGTC
- - - - - - - - - -cttttgc
- - - - - - - - - - - - - -gccaaca
- - - - - - - - - - - - - - - - - - -ccaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aactaat