Sequence
atgc intronic sequence ATGC exonic sequence...gaactttgggtttcatctacttaagcctaaatcaaacatacacttatcttattagctctgatcactactgtttttgtatttcttttcttcttttttgaagGTGGAACATGTTAAAGCTGAACGGAATCTTCTTGCTGAGGTTGACAGTGCTTGCATTGTCAAGCTTTATTGCTCCTTTCAAGATCAAGAATTTTTATATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g19290.1 (Oryza sativa), 3'ss of exon 3
gaactttgggtttcatctacttaagcctaaatcaaacatacacttatcttattagctctgatcact--actgtttttgtatttcttttcttcttttttgaagGTGGAACATGTTAAAGCTGAACGGAATCTTCTTGCTGAGGTTGACAGTGCTTGCATTGTCAAGCTTTATTGCTCCTTTCAAGATCAAGAATTTTTATATC
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--------------------------gtaattca--tgtgtgtttaagtaattaaatcagcttgtccagcaaacttttggttttctaatgtgttcttttcagGTTGAGCATGTGAGAGCTGAAAGGAATCTTCTTGCAGAGGTTGACAGTGCCTACATTGTTAAGCTTTATTGCTCATTTCAAGACGAAGAGTTTCTATACC
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G375904_T01 (Zea mays), 3'ss of exon 3
gaactttgggtttcatctacttaagcctaaatcaaacatacacttatcttattagctctgatcactactgtttttgtatttcttttcttcttttttgaagGTGGAACATGTTAAAGCTGAACGGAATCTTCTTGCTGAGGTTGACAGTGCTTGCATTGTCAAGCTTTATTGCTCCTTTCAAGATCAAGAATTTTTATATC
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---------gtaccatgtac---ggtctttctgcattgtttggcattctctatttctgttttgcttgttatcctctgacatgtgtacatatatttc--agGTAGAACATGTCAAAGCTGAAAGGAACCTTCTTGCTGAAGTTGATAGTGCTTACATAGTTAAGCTCTATTATTCTTTCCAAGACGAAGAGTTCTTATATC
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G30640.1 (Arabidopsis thaliana), 3'ss of exon 4
-----gaact-ttgggtttcatctacttaagcctaa-atcaaacatacacttatcttattagctc-tgatcactactgtttttgtatttcttttcttcttttttga--------agGTGGAACATGTTAAAGCTGAACGGAATCTTCTTGCTGAGGTTGACAGTGCTTGCATTGTCAAGCTTTATTGCTCCTTTCAAGATCAAGAATTTTTATATC
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gtaatgcactatctgatagcatctctccaaatcaaagagtttagttgtgattaaattggtaattcattaacatctgcgtaaatacgctaatcctctctttatgcggtaaatatcagGTGGAACATGTTAAAGCTGAAAGAAATGTGCTTGCAGAAGTGGATAGCCCTTTCATTGTCAAGCTTTGTTACTCTTTCCAAGATGATGAGCATTTGTATCMapped 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|110713213|gb|EE088935.1|EE088935EST: TGTATGCCATGAAAAAGCTCAAGAAATCAGAGATGCTTCGGAGGGGCCAG GTGGAACATGTTAAAGCTGAACGGAATCTTCTTGCTGANGTTGACAGTGCT
genomic: TGTATGCCATGAAAAAGCTCAAGAAATCAGAGATGCTTCGGAGGGGCCAGgtaccttctg ... ttttttgaagGTGGAACATGTTAAAGCTGAACGGAATCTTCTTGCTGAGGTTGACAGTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcttattagctctgatcactactgtttttgtatttcttttcttcttttttgaagGTGGAACATGTTAAAGCTGAACGGAATCTTCTTGCTGAGGTTGACAGTGCTTGCATTGTCAAGCTTTATTGCTCCTTTCAAGATCAAGAATTTTTATATC
ctctgat putative branch site (score: 4)
tcactactgtttttgt CT-rich tract
tttttgtatttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaactttgggtttcatctacttaagcctaaatcaaacatacacttatcttattagctctgatcactactgtttttgtatttcttttcttcttttttgaagGTGGAACATGTTAAAGCTGAACGGAATCTTCTTGCTGAGGTTGACAGTGCTTGCATTGTCAAGCTTTATTGCTCCTTTCAAGATCAAGAATTTTTATATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - -catctac
- - - - - - - - - - ttaagcc
- - - - - - - - - - - - - - aaatcaa
- - - - - - - - - - - - - - - - - - catacac