Sequence
atgc intronic sequence ATGC exonic sequence...caaagtacttctgtttggttatttatcattaatattctgtccttttctgctgatatggattttgggctttcagtgtactgattttgcattttgttggcagTGGAACCAAACAAGCTGCACATAGGTTGAAGATTTTGTTTGGATTGGCTGGCTTTAAGGCTGCTGAGCTTCATGGAAATCTTACACAAGTCCAGCGTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G25240.1 (Glycine max), 3'ss of exon 8
----------------------------------caaag--tacttctgtttggttattta---tcattaatattctgtccttttctgctgatatggattttgggctttcagtgtactg----attttgcattttgttg-gcagTGGAACCAAACAAGCTGCACATAGGTTGAAGATTTTGTTTGGATTGGCTGGCTTTAAGGCTGCTGAGCTTCATGGAAATCTTACACAAGTCCAGCGTCTT
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gttttcatttcatcatctacaagtctttttatttcagattttaagtctgctccttcatttgcactgctttatgattattatttcccttctgccactattctactacctctaaccaactgtttaatctatcattttgatgtgcagTGGAACAAAGCAAGCTGCACATAGATTGAAGATTATATTTGGATTAGCTGGCTTAAAAGCTGCTGAGCTTCATGGAAATCTTACTCAAGCCCAGCGCCTT
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA18G11950.1 (Glycine max), 3'ss of exon 8
----caaagtacttctgtttggtta-tttatcattaatattctgtccttttctgctgatatgg-attttgggctttcagtgtactgattttgcattttgttg-gcagTGGAACCAAACAAGCTGCACATAGGTTGAAGATTTTGTTTGGATTGGCTGGCTTTAAGGCTGCTGAGCTTCATGGAAATCTTACACAAGTCCAGCGTCTT
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taagtctgatccttcatttgcactgctttatgattattattt----cccttctgccactctgctacctctaactaattgttta---atctatcattttgatgtgcagTGGAACAAAGCAAGCTGCGCATAGATTGAAGATTATATTTGGATTAGCTGGCTCAAAAGCTGCTGAGCTTCATGGAAATCTTACTCAAGCCCAGCGCCTT
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G15220.1 (Glycine max), 3'ss of exon 7
-----------------------------------------caaa---gtacttctgtttgg--ttatttatcattaatattctgtccttttctgctgatatggattttgggctttcagtgtactgattttgcattttgttg-gcagTGGAACCAAACAAGCTGCACATAGGTTGAAGATTTTGTTTGGATTGGCTGGCTTTAAGGCTGCTGAGCTTCATGGAAATCTTACACAAGTCCAGCGTCTT
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gttttcatttcatcatctacaagtctttttatttcagattttaagtctgctccttcatttgcactgctttatgattattatttc-ccttctgccactattctgctacctctaaccaaactgtaa-aatctatcattttgatgtgcagTGGAACAAAGCAACCTGCAAATAGATTGAAAATTATATTTGGATTAGCTGGCTTAAAAGCTTCTGAGCTTCATGGAAATCTTACTCAGGCCCAGCAGCGC
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G16630.1 (Arabidopsis thaliana), 3'ss of exon 8
----caaagtacttctgtttggttatttatca--ttaatattctgtccttttct-gc-tgatatggattttgggctttcagtgtactga---ttttgcattttgttg--gcagTGGAACCAAACAAGCTGCACATAGGTTGAAGATTTTGTTTGGATTGGCTGGCTTTAAGGCTGCTGAGCTTCATGGAAATCTTACACAAGTCCAGCGTCTT
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gttagaagccactataaatatgatgcctttcaaatccaagttccataaagtgcttgcatagtttggcattttgtatttcagctgagagaattttttgtcccttcttgcgccagTGGAACAAAACAAGCTGCACATAGACTGAAAATTTTATTCGGATTAGCTGGCCTCAAAGCAGCTGAGCTTCATGGAAACCTAACTCAAGCACAACGTCTTMapped 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|161719083|gb|FC069336.1|FC069336EST: CTTCTTGCGTTGTGCTCCAAGACCTTCACAGCAAAAGCGATTATCTTCAG TGGAACCAAACAAGCTGCACATAGGTTGAAGATTTTGTTTGGATTGGCTGG
genomic: CTTCTTGCGTTGTGCTCCAAGACCTTCACAGCAAAAGCGATTATCTTCAGgttttttatt ... ttgttggcagTGGAACCAAACAAGCTGCACATAGGTTGAAGATTTTGTTTGGATTGGCTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgctgatatggattttgggctttcagtgtactgattttgcattttgttggcagTGGAACCAAACAAGCTGCACATAGGTTGAAGATTTTGTTTGGATTGGCTGGCTTTAAGGCTGCTGAGCTTCATGGAAATCTTACACAAGTCCAGCGTCTT
tactgat putative branch site (score: 2)
ttttgtt putative PPT
attttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaagtacttctgtttggttatttatcattaatattctgtccttttctgctgatatggattttgggctttcagtgtactgattttgcattttgttggcagTGGAACCAAACAAGCTGCACATAGGTTGAAGATTTTGTTTGGATTGGCTGGCTTTAAGGCTGCTGAGCTTCATGGAAATCTTACACAAGTCCAGCGTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - -tgtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgca