Sequence
atgc intronic sequence ATGC exonic sequence...gtttgcatttaactgataaatgctaacatatggctggttccattacttctctgcattatgactgtactataagcttgttgacatgaacaacatattgtagAAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACTGGTGCTGGTGATGCATTTGTAAGTGGGATCCTCAGCAATATAGCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G29270.1 (Glycine max), 3'ss of exon 5
gtttgcatttaactgataaatgctaacatatggctggttccattacttctctgcattatgactgtactataagcttgttgacatgaacaacatat-tgtagAAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACTGGTGCTGGTGATGCATTTGTAAGTGGGATCCTCAGCAATATAGCTTCAG
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actaggttttctttgatgttcaattatttcacattcttttctttggtctcttgtgaatgatcagtgttaagctgatggtggt-tgcctaatttctgtgcagGAATTTAAGGGCAGGGTTGCTGGTGTTAAAGTTAAACCTGTTGACACAACTGGTGCTGGTGATGCATTTGTTAGTGGGATTATCTATAGCTTAGCTTCTG
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G38570.1 (Glycine max), 3'ss of exon 5
gtttgcatttaactgataaatgctaacatatggc-tggttccattacttctctgcattatgactgtactataagcttgttgacatgaacaacatattgt--agAAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACTGGTGCTGGTGATGCATTTGTAAGTGGGATCCTCAGCAATATAGCTTCAG
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actaggttttctttgatg--ttcaatcatttcacatttttttcttttgtctcttctgaatg-ctcagttttaagctaatggtggttgcctaatttctgtgcagGAATTTAAGGGCAGGGTTGCTGGTGTTGAAGTTAAACCCGTAGACACAACTGGTGCTGGTGATGCATTTGTTAGTGGGATTATCTATAGCTTAGCTTCCG
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G32530.1 (Glycine max), 3'ss of exon 5
----gtttgcatttaactgataaatgctaacatatggctggttccattacttctctgcattatgactgtactataagcttgttgacatgaacaacatattgtagAAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACTGGTGCTGGTGATGCATTTGTAAGTGGGATCCTCAGCAATATAGCTTCAG
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actgatatgaagtttgctttttaggactcacccatgtcttcttttttgcaccttgtgaatcattgtttggctaa----ttgtgattgccaaaatttctttgcagGCATTTAAGGGCAGGGTTGCAGGTGTTAAAGTTAAACCTGTAGACACAACTGGAGCTGGCGATGCATTTGTTAGTGGGATTTTATACTGCATAGCTTCTG
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G27430.1 (Glycine max), 3'ss of exon 5
----gtttgcatttaactgataaatgctaacatatggctggttccattacttctctgcattatgactgtactataagcttgttgacatgaacaacatattgtagAAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACTGGTGCTGGTGATGCATTTGTAAGTGGGATCCTCAGCAATATAGCTTCAG
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actaatatgaagttttctttttaggacttacccatgtcttcttttttgtgccttgtgaatcattgttacgctaa----ttgtgattgccaaaatttctatgcagGCATTTAAAGGCAGGGTTTCAGGTGTTAAAGTTAAACCTGTAGACACAACTGGAGCTGGCGATGCATTTGTTAGTGGGATTTTACACTGCATAGCTTCTGMapped 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|110378624|gb|EC943764.1|EC943764EST: AGCTTTTGGTCGTGACTGAAGGGTCAGAGGGTTGCAGATATTATACTAAG AAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACT
genomic: AGCTTTTGGTCGTGACTGAAGGGTCAGAGGGTTGCAGATATTATACTAAGgtatattttt ... catattgtagAAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACT
EST:
gi|352787108|gb|FQ476335.1|FQ476335EST: AGGGTGGCAGATATTATACTAAG AAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACT
genomic: AGGGTTGCAGATATTATACTAAGgtatattttt ... catattgtagAAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttctctgcattatgactgtactataagcttgttgacatgaacaacatattgtagAAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACTGGTGCTGGTGATGCATTTGTAAGTGGGATCCTCAGCAATATAGCTTCAG
tgttgac putative branch site (score: 3)
tactataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgcatttaactgataaatgctaacatatggctggttccattacttctctgcattatgactgtactataagcttgttgacatgaacaacatattgtagAAATTTCGGGGTAGGGTTGCTGGTATTAAAGTTAAAGCTGTTGACACAACTGGTGCTGGTGATGCATTTGTAAGTGGGATCCTCAGCAATATAGCTTCAG
- - - - - - - - - - tgctaac
- - - - - - - - - - - - - - - tggctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgactgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgaac