Sequence
atgc intronic sequence ATGC exonic sequence...ggttactgacattcaattgaattggttttgactcgtattaggattggtaggttgttagaaacagcttatgatgttaacctattcaagatggcttctgcagCTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCTGTTGAAATAGCTGAGAGACGCATAGCACGGGACAAGTGGCCTGAATATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g32730.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------------ggttactgacattcaattgaattggttttgac---tcgtattag-gattggtaggttgttagaaacagctta--tgatgttaacctattca-agatggcttc-------tgcagCTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCTGTTGAAATAGCTGAGAGACGCATAGCACGGGACAAGTGGCCTGAATATT
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gttcgttattctgtaacaaagttttttttttttgtggttgaaattgctgactttgtttttacctgatgcagacagtttgtagtaacaattgacaattcactatgatttgtttgctcaacatatagttgctgagaaattactttctttgcgtgcagCTCACAGTAGCATCTATCAAGATGAACAGACCAGAGATTGCTGCAAAAGCTGTAGAGGTAGCTGAGAGGCGAATTGCTATCGACAAATGGCCTGAATACT
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G040843_T03 (Zea mays), 3'ss of exon 3
ggttactgacattcaattgaattggttttgactcgtatta-ggattggtaggttgttagaaacagctt--atgatgttaacctattcaagatggcttctgcagCTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCTGTTGAAATAGCTGAGAGACGCATAGCACGGGACAAGTGGCCTGAATATT
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--ttgctgagatttactggcaatctgttcg-ctcgcattttgcacttctcctttatgatgcgcacattgaatgttgttgagcagtggcaaccattttgtgcagCTCACAGTGGCATGCATCAAGATGAACAGACCAGAACTTGCTGCCAAAGCTATAGAAGTAGCTGAGAGGCGAATCGCTACTGACAAATGGCCGGAGTACT
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G15220.1 (Glycine max), 3'ss of exon 6
ggttactgacattcaattgaattggttttgactcgt--attaggattggtaggttgttagaaacagcttatgatgttaacctattcaagatggcttctgcagCTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCTGTTGAAATAGCTGAGAGACGCATAGCACGGGACAAGTGGCCTGAATATT
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-atttaaaattcttttcttagtgtacctggtttctttattcaagtattgcaagttggaaatatcaggttcaagtttttaac-atgaaatatgcctattgcagCTCACCGTTGCATGCATAAAGATGAAGAGAACACATATTGCTGCAAAAGCTGTTGAGATTGCCGAGAGACGCATATTAAGAGACAGGTGGCCAGAATATT
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G31920.1 (Glycine max), 3'ss of exon 5
----ggttactgacattcaattgaattggttttgactcgtattaggattggtaggttgttagaaacagcttatgatgttaacctattcaagatggcttctgcagCTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCTGTTGAAATAGCTGAGAGACGCATAGCACGGGACAAGTGGCCTGAATATT
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tgtaaaatcctttttcttagtgtacctggtttc--tttattcaagtattg-caagttggaaatatcaggttcaagtttttaac-atgaaatatgcctattgcagCTCACCGCTGCATGCATAAAGATGAAGAGAACACATATTGCTGCAAAAGCAGTTGAGATTGCTGAGAGACGCATATCAAGAGACAGGTGGCCAGAATATTMapped 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|110382317|gb|EC939148.1|EC939148EST: GCCTTGGTCCTACCATAATGCAGGTTCCTGGCCAACTTTGCTCTGGCAG CTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCT
genomic: GCCTTGGTCCTACCATAATGCAGGTTCCTGGCCAACTTTGCTCTGGCAGgttagtcatg ... gcttctgcagCTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCT
EST:
gi|110687834|gb|EE065698.1|EE065698EST: GCCTTGGTCCTACCATAATGCAGGTTCCTGGCCAACTTTGCTCTGGCAG CTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCT
genomic: GCCTTGGTCCTACCATAATGCAGGTTCCTGGCCAACTTTGCTCTGGCAGgttagtcatg ... gcttctgcagCTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtaggttgttagaaacagcttatgatgttaacctattcaagatggcttctgcagCTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCTGTTGAAATAGCTGAGAGACGCATAGCACGGGACAAGTGGCCTGAATATT
tgttaac putative branch site (score: 2)
cttctgc putative PPT
ttagaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggttactgacattcaattgaattggttttgactcgtattaggattggtaggttgttagaaacagcttatgatgttaacctattcaagatggcttctgcagCTCACAGTTGCATGCATTAAGATGGATAGACCACAAATTGCAGCAAAAGCTGTTGAAATAGCTGAGAGACGCATAGCACGGGACAAGTGGCCTGAATATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - -ctgacat
- - - - - - - aattgaa
- - - - - - - - - - - - - - - - - - - - ggattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacag