Sequence
atgc intronic sequence ATGC exonic sequence...ggtttcatgtttgtttaattatctgcaactggcaagatgttttactctaagcaagggacttacattagcttgcttactgacaatgattttaaccttgcagTATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAATGCAAAGGACATTGTTGAAGAATTACTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 10
----ggtttcatgtttgtttaattatctgcaactggcaagatgttttactctaagcaagggacttacattagcttgcttactgacaatgatttta-accttgcagTATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAATGCAAAGGACATTGTTGAAGAATTACTGCAG
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atactgtaccatatttcagtaattcagtttgttttttgaaatgttttacatccatta-----ttttggttaagctgcataattatatgtatatcacaccttgcagTATTAGAAGGCGGGCTCTTGATCTGTTATATGGTATGTGTGATGTTACGAATGCAAAGGAAATTGTCGAGGAGTTATTGCAG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 10
--ggtttcatgtttgtttaattatctgcaactggcaagatgttttactctaagcaagggacttacattagcttgcttactgacaatgattttaacctt---gcagTATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAATGCAAAGGACATTGTTGAAGAATTACTGCAG
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agaagtgcattaaaatgcaag-gttgatacagagcaaattcctttgttctcaatg-gcaatttttattaaatctaatatttttacctgcattgatttacaagCAGTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGATGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 10
ggtttcatgtttgtttaattatctgcaactggcaagatgttttactctaagcaagggactt-----acattagcttgcttactgacaatgattttaaccttgcagTATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAATGCAAAGGACATTGTTGAAGAATTACTGCAG
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-agtgcattaaaatgcaaa-gttgatacagagcaaattcctttgttctcaatggaattttttattaaatctagtatttttacctgcattgatttaca---tgcagTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGACGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 3'ss of exon 10
ggtttcatgtttgtttaattatctgcaactggcaagatgttttactctaagcaagggacttacattagcttgctta--ctgacaatgattttaacctt---gcagTATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAATGCAAAGGACATTGTTGAAGAATTACTGCAG
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-gcttctgtttcacacaatcatata-gtttgatttatagttatattct---cttggttcttttgctaatggtatcagtttcactattggttgaactttcgtgcagTATTCGTAGACGCGCTCTTGATTTGCTATATGGGATGTGCGATGTGTCAAATGCAAAGGATATAGTTGAAGAGTTGTTGCAGMapped 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|71857368|gb|DT006423.1|DT006423EST: AAAAGACATCAGGCTCAAATCATAACCTCACTGAAGGATCCTGACATCAG TATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAA
genomic: AAAAGACATCAGGCTCAAATCATAACCTCACTGAAGGATCCTGACATCAGgttaaacctg ... aaccttgcagTATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctaagcaagggacttacattagcttgcttactgacaatgattttaaccttgcagTATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAATGCAAAGGACATTGTTGAAGAATTACTGCAG
aatgattttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtttcatgtttgtttaattatctgcaactggcaagatgttttactctaagcaagggacttacattagcttgcttactgacaatgattttaaccttgcagTATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAATGCAAAGGACATTGTTGAAGAATTACTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - tcatgtt
- - - - - - - - - - - ctgcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgacaa