Sequence
atgc intronic sequence ATGC exonic sequence...tgctgacaccagaatgggattttgatgttgatactactgaagttcataaacatttccagttatgcactgtaaaatttgtagttgtcttttttttttacagGGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 3
tgctgacaccagaatgggattttgatgttgatactactgaagttcataaaca--tttccagttatgcactgtaaaatttgtagttgtctttttttttta-----cagGGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAG
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-----aagtgaggcactgttccatttcctaaaaatat--aacctcattgggggcttctctgtaattttgtttaacatttacttatatttatttatactatgattcagTGTACTTATTAGACCACATCCTGCCATTTGGCGGCTGGTCCACGGGATGGCAGTTGTTTACCTTGTTGCTCTAACTTTTTTGCTTTTCCAG
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 3
tgctgacaccagaatgggattttgatgttgatactactgaagttcataaacatttccagttatgcactgtaaaat-ttgtagttgtcttttttttttac-----agGGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAG
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--ctga----agaaaagagttacttccttgaagtctatagagttagttattaaggtatattgagtattgcaaactgttactgacatatacttctgctgtgatttagTGTACTCATTAGACCACATCCTGCCATTTGGAGGCTAGTTCATGGGATGGCAGTTGTTTACCTTGTCGCCCTCACTTTCTTGCTTTTCCAG
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 4
----tgctgacaccagaatgggattttgatgttgatactactgaagttcataaacatttccagttatgcactgtaaaatttgtagttgtcttttttttttacagGGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAG
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agagtaataatattag--ttgagttttagttcagctgaagttgtagtgaattttctcttgagactattacctgaatatttttttcttattattttcatt--cagGGTTCTTATTAGGCCACATCCTGCAATTTGGCGCTTGGTTCATGGAATGGCTGTTGTTTACCTTGTTGCCCTCACATTTTTGCTTTTTCAG
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 6
--tgctgacaccagaatgggattttgatgttgatactactgaagttcataaacatttccagttatgcactgtaaaatttgtagttgtcttttttttttacagGGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAG
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agtaataatattagt-tgagtttttagttcagctgaagttatagtaaattttctcttgagaatattacctg-aatatatttttttttcatgttttcattcagGGTTCTTATTAGGCCACATCCTGCAATTTGGCGCTTGGTTCATGGCATGGCTGTTGTATACCTAGTTGCCCTCACATTTTTGCTTTTTCAGMapped 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|349828936|gb|FQ419269.1|FQ419269EST: CGATGATTGCAGTCTTTTCTTGCTTACTGCTTGCTGCAAGCCCCTTCAAC GGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGC
genomic: CGATGATTGCAGT-TTTTCTTGCTTACTGCTTGCTGCAAGCCCCTTCAACgtaagttcca ... ttttttacagGGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGC
EST:
gi|351026887|gb|FQ436540.1|FQ436540EST: CGATGATTGCAGTTTTTTCTTGCTTACTGCTTGCTGCAAGCCCCTTCAAC GGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGC
genomic: CGATGATTGCAGTTTTT-CTTGCTTACTGCTTGCTGCAAGCCCCTTCAACgtaagttcca ... ttttttacagGGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaacatttccagttatgcactgtaaaatttgtagttgtcttttttttttacagGGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAG
ttgtctttttttttta CT-rich tract
taaaatttgtagttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctgacaccagaatgggattttgatgttgatactactgaagttcataaacatttccagttatgcactgtaaaatttgtagttgtcttttttttttacagGGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAG
- - gacacca
- - - - - - - - - - - - - - - - -ctactga
- - - - - - - - - - - - - - - - - - - - - - cataaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgcac