Sequence
atgc intronic sequence ATGC exonic sequence...catattttggacttttggcaagttctaattctttcaatcagggttgagtaactgtcttttcatttgtagctgctgaagttgtatctcttttggatttcagCAAACCAGTGGAACCTGATCGCCTTTTTGATTGCCTCCCCCACTCTCTACGACCATCATCAGGGTCTCCTGGGCATCAGGGTGAAGCTACTGGCAAGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g02340.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g06270.1 (Oryza sativa), 3'ss of exon 3
------------------------------------------catattttgga----cttttggcaagtt-ctaattctttcaatcagggttgagtaactg-tcttttcatttgtagctgctgaagttgtatc-tcttttggatttcagCAAACCAGTGGAACCTGATCGCCTTTTTGATTGCCTCCCCCACTCTCTACGACCATCATCAGGGTCTCCTGGGCATCAGGGTGAAGCTACTGGCAAGAAT
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gttgaatttacattcctgaaccctcatcatgttgattcttgttgtatggtagaggagcactacgtatgtttcctagacctctgcccatggtaattcatctgctactctgataaatcttcaaatatgatctgttgtccctgttctttcagCAAACCTATTGAACCTGATCGCCTATTTGATTGCCTTCCAAAGCCTCCACGAGCACCAAAAGATGACAATGATGCTGATGGAGGACACACTCACTCTGAA
upper sequence: Vv08s0007g02340.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G046590_T01 (Zea mays), 3'ss of exon 3
catattttggacttttggcaagttctaattctttcaatcagggttgagtaactgtcttttcatttgtagctgctgaagttgtatctcttttggatttcagCAAACCAGTGGAACCTGATCGCCTTTTTGATTGCCTCCCCCACTCTCTACGACCATCATCAGGGTCTC--CTGGGCATCAGGGTGAAGCTACTGGCAAGAAT
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---gtttgtgtctcattattaattcgtaattgatcattttgctatctaaaacacacctaatccttgc-gctgtgcaccct-----cctaactgatttcagCAAACCGATGGAGCCTGATCGTCTTTTTGATTGTCTTCCAAGTACACTTCGACCATCGTCTGAATCTCAGCCCGAAGGTGGGAAAAACCCATC--CGAGAAT
upper sequence: Vv08s0007g02340.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G05040.1 (Glycine max), 3'ss of exon 3
catattttggacttttggcaagttctaattctttcaatcagggttgagtaactg-----tcttttcatttgtagctgctgaagttgtatctcttttggatttcagCAAACCAGTGGAACCTGATCGCCTTTTTGATTGCCTCCCCCACTCTCTACGACCATCATCAGGGTCTCCTGGGCATCAGGGTGAAGCTACTGGCAAGAAT------
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---attttagatacatggaaggtttagggtcttttttattggactctaaaacttaaaacttctatcattataaaatgtttaa--caaattagattttgatttcagTAAACCTGTAGAACCTGATCGCCTTTTTGAGTGCCTACCAAACTCTCTAAGGCCATCAAA------TTCTGGGAAGCAAAGTGAAGGCGGTGGTAAAAACCATTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagtaactgtcttttcatttgtagctgctgaagttgtatctcttttggatttcagCAAACCAGTGGAACCTGATCGCCTTTTTGATTGCCTCCCCCACTCTCTACGACCATCATCAGGGTCTCCTGGGCATCAGGGTGAAGCTACTGGCAAGAAT
gagtaac putative branch site (score: 2)
tatctctttt putative PPT
ttttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catattttggacttttggcaagttctaattctttcaatcagggttgagtaactgtcttttcatttgtagctgctgaagttgtatctcttttggatttcagCAAACCAGTGGAACCTGATCGCCTTTTTGATTGCCTCCCCCACTCTCTACGACCATCATCAGGGTCTCCTGGGCATCAGGGTGAAGCTACTGGCAAGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - -cttttgg
- - - - - - - - - - - - - - - - -tcaatca
- - - - - - - - - - - - - - - - - - - - gggttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgctg