Sequence
atgc intronic sequence ATGC exonic sequence...ccaattgttggtattggccattgcctgtttgctcattacaattattgtttattctcatgaaacaacctaacataggttctcttgtttcatcatgatacagGGTGCATGGCAGCATTAGATGCAGAGCATTACCTGCAAGAGATTGGATCCCAGGAAGGTAAAAGTGATTGACTACCAAGTATCTGCCAGAGATCAAAATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g01750.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G17420.1 (Arabidopsis thaliana), 3'ss of exon 1
-ccaattg--ttggtattggccattgcctgtttgctcattacaattattgtttattctcatgaaacaacctaacataggttctcttgtttcatcatgatacagGGTGCATGGCAGCATTAGATGCAGAGCATTACCTGCAAGAGATTGGATCCCAGGAAGGTAAAAGTGATTGACTACCAAGTATCTGCCAGAGATC-AAAATA-
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ctaaagtgatttcatgtttact-tcaaatgttt-ctcatctgtttttttggtttcatgaatcaaa-agttcaactttcataaacaactttatggatggtgcagGGTGCATGGCGGCATTGGATGCAGAGCATTACTTACAAGAGATTGGATCTCAGGAGGGTAAGAGTGATTGAAGA--AGCTGTAGGAGAAGGATCCATGATAA
upper sequence: Vv04s0044g01750.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G35460.1 (Arabidopsis thaliana), 3'ss of exon 1
ccaattgttggtattggccattgcctgtttgctcattacaattattgtttattct---catgaaacaac--ctaacataggttctcttgtttcatc-atgatacagGGTGCATGGCAGCATTAGATGCAGAGCATTACCTGCAAGAGATTGGATCCCAGGAAGGTAAAAGTGATTGACTACCAAGTATCTGCCAGAGATCAAAATA----
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--agtctttagagtaaagagt--cttgttt--tcacaatgttcaatgcttattctattcatagagcaataatcgtcattgcaaactctgtttgattgattgtgtagGGTGCATGGCAGCTTTGGATGCAGAGCATTACTTACAAGAGATTGGATCTCAGCAAGGTAAGAGTGATTGAGGA--AATTGTTGG--AAGGCTCAGGTCATTGAMapped 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|110390972|gb|EC955922.1|EC955922EST: AGACGTCCAAGACAAGAAGTACAGGCAGGCTGTGACTGCTGCTGGCACTG GGTGCATGGCAGCATTAGATGCAGAGCATTACCTGCAAGAGATTGGATCCC
genomic: AGACGTCCAAGACAAGAAGTACAGGCAGGCTGTGACTGCTGCTGGCACTGgttagctaca ... catgatacagGGTGCATGGCAGCATTAGATGCAGAGCATTACCTGCAAGAGATTGGATCCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttattctcatgaaacaacctaacataggttctcttgtttcatcatgatacagGGTGCATGGCAGCATTAGATGCAGAGCATTACCTGCAAGAGATTGGATCCCAGGAAGGTAAAAGTGATTGACTACCAAGTATCTGCCAGAGATCAAAATA
acctaac putative branch site (score: 2)
ttctcttgtttcatc putative PPT
taacata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaattgttggtattggccattgcctgtttgctcattacaattattgtttattctcatgaaacaacctaacataggttctcttgtttcatcatgatacagGGTGCATGGCAGCATTAGATGCAGAGCATTACCTGCAAGAGATTGGATCCCAGGAAGGTAAAAGTGATTGACTACCAAGTATCTGCCAGAGATCAAAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - -tgttggt
- - - - - - - - - - -tgcctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - -ctcatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaacc