Sequence
atgc intronic sequence ATGC exonic sequence...actattacttttctttagttcctgttcctttgatccttattgcaatatgcttctcatacgacactaaggataatgttatttctccttgtattgattgtagCCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTCAACTGGCCTGGGGTTTCCAAGATTCCTTGGTATAGCAATTTCAAGCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G10960.1 (Glycine max), 3'ss of exon 7
actattacttttctttagt---tcctgttcctttgatccttattgcaatatgcttctcatacgacactaaggataatgttatttctccttgtattgattgtagCCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTCAACTGGCCTGGGGTTTCCAAGATTCCTTGGTATAGCAATTTCAAGCCAA
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-ttcttgcttttaccatgtgtggcctatagtgtatatactcatggtaat-tgtttctagtacagt-ttgaaggtaatgcatgttttctttgtaattattgtagCCAGAACAATTAAATAAGATTTTTGAGCTGTGTGGAGCACCAGATGAGGTGAACTGGCCCGGTGTTTCTAAGACTCCTTGGTATAATCAATTTAAGCCTA
upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA14G04410.1 (Glycine max), 3'ss of exon 8
----actattacttttctttagttcctgttcctttgatccttattgcaatatgcttctcatacgacactaaggataatgttatttctccttgtattgattgtagCCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTCAACTGGCCTGGGGTTTCCAAGATTCCTTGGTATAGCAATTTCAAGCCAA
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tggcattactgtatatgttca--cgataatttttcgtgaaaaaaaacgata-atttttcgtacagc-ttaagtgtaatacaggttttgtttgtaattattgtagCCAGAACAATTAAATAAAATATATGAGCTGTGTGGAGCACCAAATGAAGTCAATTGGCCTGGGGTTTCCAAGATACCTTATTATAATAAATTTATGCCAA
upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G44400.1 (Glycine max), 3'ss of exon 9
actattacttttctttagttcctgttcctttgatccttat--tgcaatatgcttctcatacgacactaaggataatgttatttctccttgtattgattgtagCCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTCAACTGGCCTGGGGTTTCCAAGATTCCTTGGTATAGCAATTTCAAGCCAA
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-ccggatctttcttttaatatacatggcattactgtatatcctcctgataatttttcatacagc-ttaaatgtaatacaggttttgtttgcaattattgtagCCAGAACAATTAAACAAAATATATGAGCTGTGTGGAGCACCAAATGAAGTCAATTGGCCTGGGGTTTCCAAGATACCTTATTATAATAAATTTATGCCAAMapped 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|110707937|gb|EE084906.1|EE084906EST: TCTTTGCAGAACTTCTGCATGGAAAACCTATCTTTCCTGGAAAAGATGAG CCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTC
genomic: TCTTTGCAGAACTTCTGCATGGAAAACCTATCTTTCCTGGAAAAGATGAGgtaggttgct ... ttgattgtagCCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTC
EST:
gi|110689298|gb|EE065410.1|EE065410EST: TGGAAAACCTATCTTTCCTGGAAAAGATGAG CCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTC
genomic: TGGAAAACCTATCTTTCCTGGAAAAGATGAGgtaggttgct ... ttgattgtagCCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgcttctcatacgacactaaggataatgttatttctccttgtattgattgtagCCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTCAACTGGCCTGGGGTTTCCAAGATTCCTTGGTATAGCAATTTCAAGCCAA
tattgat putative branch site (score: 3)
tttctccttgtatt CT-rich tract
ataatgttatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actattacttttctttagttcctgttcctttgatccttattgcaatatgcttctcatacgacactaaggataatgttatttctccttgtattgattgtagCCTGAACAATTAAATAAGATCTTTGAGCTTTGTGGAGCTCCAGATGAAGTCAACTGGCCTGGGGTTTCCAAGATTCCTTGGTATAGCAATTTCAAGCCAA
- - - - - - - - - ttcctgt
- - - - - - - - - - - - - - - - - - - - - - - -tgcttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggataa