Sequence
atgc intronic sequence ATGC exonic sequence...tggtacagatccctttcccgatttctttttctgctgggtaatcttacagaattctcagaccatttttagtggatttatgtatggtttatcttttgtgcagTTGATGACATGTACCTTGCTTCTCTGATTAACAAAGGACGGGAAGTTTATAAACTTGGAACAACAGATCCCACTGCTCTCCCTGCTGAAACAATCCTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0146g00170.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os12g28270.1 (Oryza sativa), 3'ss of exon 6
tggtacagatccctttcccgatttctttttctgctgggtaatcttacagaattctcagaccat-ttttagtggatt-----tatgtatggtttatcttttgtgcagTTGATGACATGTACCTTGCTTCTCTGATTAACAAAGGACGGGAAGTTTATAAACTTGGAACAACAGATCCCACTGCTCTCCCTGCTGAAACAATCCTCAA
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-----cag-tttttttattacttcgttatccaccaccgtgtctgcactgatgcctcgatatatatcatagtatataaaacatttacatgtctacccgtttgtgcagTTGATGAGATGTACCTAGCCTGTCTTATTAACAAAGGGCGTGAGGCGTACATCACTGGTACAACGAACCCAACTGCTCTTCCTGCAGAGACTGTATTGAA
upper sequence: Vv01s0146g00170.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G39350.1 (Glycine max), 3'ss of exon 4
tggtacagatccctttcccg-atttctttttctgctgggta---atcttacagaattctcagaccatt---tttagtggatttatgtat-ggtttatcttttgtgcagTTGATGACATGTACCTTGCTTCTCTGATTAACAAAGGACGGGAAGTTTATAAACTTGGAACAACAGATCCCACTGCTCTCCCTGCTGAAACAATCCTCAA
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--------gtctcttgctcggatggagaatactgggcagtacacattctataaaataccaagtacattgtactgggtggaaattttcattaataaattatatttgcagTTGACGAAATGTACCTAGCTTCTCTAATTAACAAAGGACGGGGAGTTTATGCTAATGGAACTACAGATCCAACTGCATTGCCTGCTGAAACTATTCTTAGMapped 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|30124970|gb|CB910309.1|CB910309EST: TGTCTCATTGGGAACAGATGGCGCACCATCAAATAACAGAATGAGCATTG TTGATGACATGTACCTTGCTTCTCTGATTAACAAAGGACGGGAAGTTTATA
genomic: TGTCTCATTGGGAACAGATGGCGCACCATCAAATAACAGAATGAGCATTGgtttgttttg ... ttttgtgcagTTGATGACATGTACCTTGCTTCTCTGATTAACAAAGGACGGGAAGTTTATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagaattctcagaccatttttagtggatttatgtatggtttatcttttgtgcagTTGATGACATGTACCTTGCTTCTCTGATTAACAAAGGACGGGAAGTTTATAAACTTGGAACAACAGATCCCACTGCTCTCCCTGCTGAAACAATCCTCAA
atcttac putative branch site (score: 3)
tttatctttt putative PPT
atttatgtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtacagatccctttcccgatttctttttctgctgggtaatcttacagaattctcagaccatttttagtggatttatgtatggtttatcttttgtgcagTTGATGACATGTACCTTGCTTCTCTGATTAACAAAGGACGGGAAGTTTATAAACTTGGAACAACAGATCCCACTGCTCTCCCTGCTGAAACAATCCTCAA
- - - - - ccctttc
- - - - - - - - - - - - - - -tctgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgg