Sequence
atgc intronic sequence ATGC exonic sequence...caagaaatccttagtaggactgaggcctgcatgcttctgattgttttaaatctgccaattggaaaaaaaattctcatctgtttatgtgtggtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCCCTTAAACCATGGGATTGGTGGACGTCTTGGCTTCTAAAACCTGTTGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0036g00430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g41520.1 (Oryza sativa), 3'ss of exon 4
caagaaatccttagtaggactgaggcctgcatgct-tctgattgttttaaatctgccaattggaaaaaaaattctcatct-gtttatgtgtggtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCCCTTAAACCATGGGATTGGTGGACGTCTTGGCTTCTAAAACCTGTTGATG
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tttcagat--ttagaacgttttaacaccttatgatatctcatcatatataatccacagcctgctgattatttgtaaacgtcgccttcctaactttgctgcagTGGATGGTTGATGAGAAAGAACTTAGGGTCATTCACTACACACTTGGGCCTCTTAAGCCCTGGGACTGGTGGACTGCTTGGCTTGTTAAACCTGTGGCAG
upper sequence: Vv14s0036g00430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G40980.1 (Glycine max), 3'ss of exon 4
--caagaaatccttagtaggactgaggcctgcatgcttctgattgttttaaatctgccaattggaaaa---aaaattctcatctgtttatgtgtggtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCCCTTAAACCATGGGATTGGTGGACGTCTTGGCTTCTAAAACCTGTTGATG
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cataccaaatactacatgcatttg---tctctgagcattcatttgtattgcatctttcaattctattgtctaacattctaa-ctattcatgc-tgatctatccagTGGATGGTAGATGAGAATGAACTCCGTGTGATTCACTATACACTGGGCCCCCTTAAGCCTTGGGACTGGTGGACGTCTTGGCTTTTGAAACCTGTTGATG
upper sequence: Vv14s0036g00430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G43630.1 (Glycine max), 3'ss of exon 4
caagaaatccttagtaggactgaggcctgcatgcttctgattgttttaaatctgccaattggaaaaa--aaattctcatctgtttatgtgtggtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCCCTTAAACCATGGGATTGGTGGACGTCTTGGCTTCTAAAACCTGTTGATG
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ccctggataccaaatatatatttg-tctctgagcattcatttgtattgcatctttcgattctattatctaacattcaaactattcgtgc-tgatcaatccagTGGATGGTAGATGAGAATGAACTCCGTGTGATTCACTATACACTGGGCCCCCTTAAGCCTTGGGACTGGTGGACGTCTTGGCTTTTGAAACCTGTTGATG
upper sequence: Vv14s0036g00430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G37000.1 (Glycine max), 3'ss of exon 4
caagaaatccttagta---ggactgaggcctgcatgcttctgattgttttaaatctgccaatt--ggaaaaaaaattctcat-ctgtttatgtgtggtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCCCTTAAACCATGGGATTGGTGGACGTCTTGGCTTCTAAAACCTGTTGATG
|| | | || | | | | | || | || || |||| | || | | | || | |||| || || ||| || | | ||||||||||| ||||| | |||||||||| || || || ||||| ||||| ||||| || ||||| |||||||| ||||||||| | |||||||||||||
-----cataccaaatatatgcatttaaatatctctgtgttcttttacattgcatcttttacttcagttatataactattcatactattcatgc-tgatttgtccagTGGATGGTGGATGAGAACGAACTCCGTGTAATTCATTATACACTAGGCCCTCTTAAGCCTTGGGACTGGTGGACATCTTGGCTTGTGAAACCTGTTGATG
upper sequence: Vv14s0036g00430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G30700.1 (Glycine max), 3'ss of exon 6
caagaaatccttagtaggactgaggcctgcatgcttctgattgttttaaatctgccaattggaaaaaaaattctcatc-------tgtttatgtgtggtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCCCTTAAACCATGGGATTGGTGGACGTCTTGGCTTCTAAAACCTGTTGATG
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------ttctctcacatacataccaaatatatgcatttaaatatgtcttttttattcattgcaacttttacttcaattatataaatattcat-tctgatttgtccagTGGATGGTGGATGAGAATGAACTCCGTGTAATTCATTATACACTAGGTCCTCTTAAGCCTTGGGACTGGTGGACATCTTGGCTTGTGAAACCTGTTGATGMapped 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|30129038|gb|CB914377.1|CB914377EST: TGTCCACTCTATACAATGCTGATGTTGGTCTTTACATGCTTGCTAACAAG TGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCC
genomic: TGTCCACTCTATACAATGCTGATGTTGGTCTTTACATGCTTGCTAACAAGgtactaaacc ... gtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCC
EST:
gi|110721118|gb|EE097748.1|EE097748EST: TGTCCACTCTATACAATGCTGATGTTGGTCTTTACATGCTTGCTAACAAG TGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCC
genomic: TGTCCACTCTATACAATGCTGATGTTGGTCTTTACATGCTTGCTAACAAGgtactaaacc ... gtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaatctgccaattggaaaaaaaattctcatctgtttatgtgtggtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCCCTTAAACCATGGGATTGGTGGACGTCTTGGCTTCTAAAACCTGTTGATG
aattggaaaaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caagaaatccttagtaggactgaggcctgcatgcttctgattgttttaaatctgccaattggaaaaaaaattctcatctgtttatgtgtggtaaatgcagTGGATGGTAGATGAAGAAAAACTCCGTGTTATCCACTACACACTTGGCCCCCTTAAACCATGGGATTGGTGGACGTCTTGGCTTCTAAAACCTGTTGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
-aagaaat
- - - - - - - - - - - - -cctgcat
- - - - - - - - - - - - - - - - -cttctga
- - - - - - - - - - - - - - - - - - - - - - - - - tctgcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa