Sequence
atgc intronic sequence ATGC exonic sequence...tctgaatatggtattaggaggcctaatgtacttctttcttcacttaatttgttctattcattgcagttcttactcaacatgaacccttgattttatgtagGCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTTCACTGGTGGTTTGCTTTGGGGAAATGTTGATTGACTTTGTGCCAACAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G32530.1 (Glycine max), 3'ss of exon 1
tctgaatatggtattaggaggcctaatgtacttctttcttcacttaatttgttctattcattgcagttcttactcaacatgaacccttgattttatgtagGCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTTCACTGGTGGTTTGCTTTGGGGAAATGTTGATTGACTTTGTGCCAACAGT------
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ttttacttttttactctggagtctgaaatcacattgttacgaattaaaagttatgacaaaccatggctcatgttggtctgaagatactgcttgtgtgcagGTCAATCCCATGATCT----CAAAAAAGAAGATTGCAAGGAAACAAGA--TCACTGGTTGTTTGCTTTGGGGAAATGTTAATAGACTTTGTTCCAACGGTGGGAGG
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G38570.1 (Glycine max), 3'ss of exon 1
------tctgaatatggtattaggaggcctaatgtacttctttcttcacttaatttgttctattcattgcagttcttactcaacatgaacccttgattttatgtagGCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTTCACTGGTGGTTTGCTTTGGGGAAATGTTGATTGACTTTGTGCCAACAGT------
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tccacatacaaatacactaatagaagtcatcctatg--tccaattttatttatttatttttacttagttca-tgctggt--aacctagctactccattg-gtgcagGTAAATCAGACAATCTCACC--AAAGAAGACTGTATTGGA----AAAAGTGCGCTGGTTGTTTGCTTTGGTGAAATTTTAATAGACTTTGTGCCAACAGTGTGTGG
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G27430.1 (Glycine max), 3'ss of exon 1
tctgaatatggtattaggaggcctaatgtacttctttcttcacttaatttgttctattcattgcagttcttactcaacatgaacccttgattttatgtagGCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTTCACTGGTGGTTTGCTTTGGGGAAATGTTGATTGACTTTGTGCCAACAGT------
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ttttactttttttctcttaagtctgaaatcactttgttactaatgaaaagttatgacaaaccatggctcatgttggtctgaagatactgcttgcgtgcagGTCAATCCAATGATCTCAC----AAAAGAAGATTGCAAGGAAACAA--GTTCAGTGGTTGTTTGCTTCGGGGAAATGTTAATAGACTTTGTTCCAATGGTGGGAGGMapped 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|352763391|gb|FQ471703.1|FQ471703EST: TCCACTGTGTTTCATTCTCCCTTTTCAAATGGCTAAAAATCCCACCTCAG GCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTT
genomic: TCCACTGTGTTTCATTCTCCCTTTTCAAATGGCTAAAAATCCCACCTCAGgttcgtgctt ... ttttatgtagGCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTT
EST:
gi|71857203|gb|DT006258.1|DT006258EST: ACTGTGTTTCATTCTCCCTTTTCAAATGGCTAAAAATCCCACCTCGG GCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTT
genomic: ACTGTGTTTCATTCTCCCTTTTCAAATGGCTAAAAATCCCACCTCAGgttcgtgctt ... ttttatgtagGCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttgttctattcattgcagttcttactcaacatgaacccttgattttatgtagGCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTTCACTGGTGGTTTGCTTTGGGGAAATGTTGATTGACTTTGTGCCAACAGT
ttgattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgaatatggtattaggaggcctaatgtacttctttcttcacttaatttgttctattcattgcagttcttactcaacatgaacccttgattttatgtagGCAATTATGAAGATCTTCCCCTAAATACAGGAGGAGCAGACAATAAAAGTTCACTGGTGGTTTGCTTTGGGGAAATGTTGATTGACTTTGTGCCAACAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - -cctaatg
- - - - - - - - - - - - - - - - - - tcttcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgaac