Sequence
atgc intronic sequence ATGC exonic sequence...aaaaaatttgtagttgatgtagaacctgaagaacagacttcctatacttgattacattgcttatttgtaacagattgtactaagttgttttctggcacagGTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTTGTGCTCGATTTTGAGGAGATTTATGTAATCGATTCAAAAACAAAATCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g01770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G42430.1 (Glycine max), 3'ss of exon 1
-----------------------------------------------------aaaaaatttgtagt--tgatgtagaacctgaagaacagacttcctatacttg-----attacattgcttatttgtaacagattg-------tactaagttgttttctggcacagGTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTTGTGCTCGATTTTGAGGAGATTTATGTAATCGATTCAAAAACAAAATCAA
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gtagttgtttcttgcatctttccttataggtattgtagtagaggaaatttcattataaatttgtagcaataagtccaagcatttgaaaaaaaattaacatagttactgaaatgatgctcttggtctttgctaaaatggctccctcatcagacttgtttcggttacagGTGTACTTGACAAAACACTACAAAAATAGGAGGAAGGGTGATCCTGAGTTTGTGCTAGATTTTGAAGAGATTTATGTTATCGATTCCAAAACCAAGTCAA
upper sequence: Vv18s0001g01770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G12370.1 (Glycine max), 3'ss of exon 3
aaaaaatttgtagttgatgtagaacctgaag-aacagacttcctatacttgattacattgcttatttgtaacagattgtact-----aagttgttttctggcacagGTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTTGTGCTCGATTTTGAGGAGATTTATGTAATCGATTCAAAAACAAAATCAA
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-----aagtccaatcattgtaaaaaagaaattaacatagttactgaaat-gatgctcttggtctttgctagaatgtctccctcataggacttctttcctgttacagGTGTACTTGACAAAACACTACAAAAATCGAAGGAAGGGTGATTCTGAGTTTGTGCTTGATTTTGAAGAGATTTATGTTATTGATTCCAAATCCAAGTCAA
upper sequence: Vv18s0001g01770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G09200.1 (Glycine max), 3'ss of exon 3
aaaaaatttgtagttgatgtagaacctga-agaacagacttcctatacttgattacattgcttatttgtaacagattgtact-----aagttgttttctggcacagGTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTTGTGCTCGATTTTGAGGAGATTTATGTAATCGATTCAAAAACAAAATCAA
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--ttcattcttactttctctctattctcctagattaggaattctac----gatgctcttggtctttgctaaaatgtctccctcattggacttctttcctgttacagGTGTACTTGACAAAACACTACAAAAATCGAAGGAAGGGTGATCCTGAGTTTGTTCTTGATTTTGAAGAGATTTATGTTGTTGATTCCAAAACCAAGTCAAMapped 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|349826810|gb|FQ418901.1|FQ418901EST: TTGATGCGCCTCGGGATCCATTGTACAAGTCCGAGAGGGAGGTTTGGAAG GTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTT
genomic: TTGATGCGCCTCGGGATCCATTGTACAAGTCCGAGAGGGAGGTTTGGAAGgtgagatcaa ... tctggcacagGTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTT
EST:
gi|349824926|gb|FQ406465.1|FQ406465EST: TTGATGCGCCTCGGGATCCATTGTACAAGTCCGAGAGGGAGGTTTGGAGG GTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTT
genomic: TTGATGCGCCTCGGGATCCATTGTACAAGTCCGAGAGGGAGGTTTGGAAGgtgagatcaa ... tctggcacagGTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgattacattgcttatttgtaacagattgtactaagttgttttctggcacagGTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTTGTGCTCGATTTTGAGGAGATTTATGTAATCGATTCAAAAACAAAATCAA
ttgtaac putative branch site (score: 2)
ttgttttct putative PPT
ttatttgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaaatttgtagttgatgtagaacctgaagaacagacttcctatacttgattacattgcttatttgtaacagattgtactaagttgttttctggcacagGTTTTCTTGACAAAACACTACAGGAATCGGAGGTTGGCTGACCCAGAATTTGTGCTCGATTTTGAGGAGATTTATGTAATCGATTCAAAAACAAAATCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
aaaaaat
- - - - - - - - - - - - - -gaagaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taacaga