Sequence
atgc intronic sequence ATGC exonic sequence...tctatcaaaaaaaacaaaaaaaaaaaagtatgaaccttcttatcattttgctattcacctactgttggaattaattttctctctttctttattggtgcagTGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTGGAATTCATGGGCTGAGGGACTTAAACTTGCTAATGCTATCAACTACCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G08080.1 (Glycine max), 3'ss of exon 8
tctatcaaaaaaaacaaaaaaaaaaaagtatgaaccttcttat-cattttgctattcacctactgttggaattaat---tttctctctttctttattggtgcagTGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTGGAATTCATGGGCTGAGGGACTTAAACTTGCTAATGCTATCAACTACCAA
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----ttgtagtcacttttattttgcaaataaaagtggtctaaaacatcctgtttagtgactgggctggaaattaacatgttccattatggctgtgtacatgcagTGAAGCAGATGAGATTTACAAAATATGCAGTGTGCTAGGTAGTCCAACCACTGAATCTTGGGCAGATGGACTCAAACTTGCCAGGGATATCAACTATCAG
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 8
-tctatcaaaaaaaacaaaaaaaaaaaagtatgaaccttct-tatcattttgctattcacctactgttggaattaattttctctctttctttattggtgcagTGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTGGAATTCATGGGCTGAGGGACTTAAACTTGCTAATGCTATCAACTACCAA
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gcaaattgtagtcactattattttgcaaataaaagtggtctacagcatcctgttaagtgaccaggctggaaattaatgtgttccatggctgtac--atgcagTGAAGCAGATGAGATCTACAAAATATGCAGTGTGATAGGTAGTCCAACCACTGAATCTTGGGCAGATGGACTCAAACTTGCCAGGGATATCAACTATCAG
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G35190.1 (Glycine max), 3'ss of exon 8
--tctatcaaaaaaaacaaaaaaaaaaaagtatgaaccttcttatcattttgctattcacctactgttggaattaattttctctctttctttattg---gtgcagTGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTGGAATTCATGGGCTGAGGGACTTAAACTTGCTAATGCTATCAACTACCAA
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tttctttgctgtaaatcaagtggaatcatgctctaaagcagtcctgatt-----agcaactggatgctgtaaataattatgtttctttcattgtgacacatgcagTGAAGCGGATGAGATTTACAAAATATGTGGTGTGATAGGCAATCCAACCTTTGAATCATGGGCGGATGGACTCAAACTTGCAAGGGATATTAACTACCAG
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G34610.1 (Glycine max), 3'ss of exon 8
tctatcaaaaaaaacaaaaaaaaaaaagtatgaaccttcttatcattttgctattcacctactg---ttggaattaattttctctctttctttattg---gtgcagTGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTGGAATTCATGGGCTGAGGGACTTAAACTTGCTAATGCTATCAACTACCAA
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------agtcattgcaaattgttatgtttattctttgctttaaagcagtcctgattagaaactggatctgtaaataattatgtttccttcattgtgacacatgcagTGAAGCGGATGAGATTTACAAAATATGTGGTGTGATAGGCAATCCAACCTTTGAATCATGGGCGGATGGACTCAAACTTGCAAGGGATATTAACTACCAGMapped 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|161720107|gb|FC066739.1|FC066739EST: GCTATCATGGCTGAATTGTTTACTCTCCGTCCTCTCTTTCCAGGATCGAG TGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTG
genomic: GCTATCATGGCTGAATTGTTTACTCTCCGTCCTCTCTTTCCAGGATCGAGgtaaatgttt ... attggtgcagTGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTG
EST:
gi|33404620|gb|CF210247.1|CF210247EST: GCTATCATGGCTGAATTGTTTACTCTCCGTCCTCTCTTTCCAGGATCGAG TGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTG
genomic: GCTATCATGGCTGAATTGTTTACTCTCCGTCCTCTCTTTCCAGGATCGAGgtaaatgttt ... attggtgcagTGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgctattcacctactgttggaattaattttctctctttctttattggtgcagTGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTGGAATTCATGGGCTGAGGGACTTAAACTTGCTAATGCTATCAACTACCAA
aattaat putative branch site (score: 3)
ttaattttctctcttt CT-rich tract
ttggaattaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctatcaaaaaaaacaaaaaaaaaaaagtatgaaccttcttatcattttgctattcacctactgttggaattaattttctctctttctttattggtgcagTGAAGCAGATGAAATTTACAAAATATGCAGTGTTATGGGCAGTCCAACTTGGAATTCATGGGCTGAGGGACTTAAACTTGCTAATGCTATCAACTACCAA
- - - aaaaaaa
- - - - - - - - - - - - - - tatgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cacctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgga