Sequence
atgc intronic sequence ATGC exonic sequence...ttgctttgtcttttgattgatttgtttcttttacttgagatggttctttagagtagctatttgtgcttcccatctgataggctggaagctatatgctcagGTTGCATCCCAAGACGGTTTTGGAACGTTAGGTGCTATTGTGAGGAGTCAAACTGGCAACAGACAAGTTGGTTTTCTCACAAACCGGCATGTTGCAGTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0027g00520.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G078541_T01 (Zea mays), 3'ss of exon 4
ttgctttgtcttttgattgatttgtt-tcttttacttgagatggttctttagagtagctatttgtgcttcccatc-tgataggctggaagctatatgctcagGTTGCATCCCAAGACGGTTTTGGAACGTTAGGTGCTATTGTGAGGAGTCAAACTGGCAACAGACAAGTTGGTTTTCTCACAAACCGGCATGTTGCAGTTA
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--cttatgcatcaaaatcagttggggataactgatatacaaaaattcatgaacttgacatattctgctaagagttgtctttttttttggtttccatctttagGTGGCTAGTCTTGAGACCTATGGGACTTTGGGTGCCATTGTGAAGAGTCAAACTGGCAATAAACAAGTTGGGTTCCTTACAAACAGGCATGTTGCGGTTG
upper sequence: Vv19s0027g00520.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G150212_T03 (Zea mays), 3'ss of exon 5
ttgctttgtcttttgattgatttgtttcttttacttgagatggttctttagag---tagctatttgtgcttcccatctga----taggctggaagctatatgctcagGTTGCATCCCAAGACGGTTTTGGAACGTTAGGTGCTATTGTGAGGAGTCAAACTGGCAACAGACAAGTTGGTTTTCTCACAAACCGGCATGTTGCAGTTA
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-------gttttcttatcaatcaaaatcacttggagataactgatatacaaaaattcatgcatttgccatcttcagctaagtgttgtcttttttaatcaacctttagGTGGCTAGTCTTGAGACCTATGGGACTTTGGGTGCCATTGTGAAGAGTCGAACTGGCAACAAGCAAGTTGGGTTCCTTACAAACAGGCATGTTGCGGTTG
upper sequence: Vv19s0027g00520.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G40700.1 (Glycine max), 3'ss of exon 3
ttgctttgt-cttttgattgatttgtttctttta----cttgagatggttctttagagtagctatttgtgcttcccatctgataggctggaagctatatgctcagGTTGCATCCCAAGACGGTTTTGGAACGTTAGGTGCTATTGTGAGGAGTCAAACTGGCAACAGACAAGTTGGTTTTCTCACAAACCGGCATGTTGCAGTTA
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-aaatcaatgcagttcatagaagcgtctctagtagaaaatttctgtagtgctctat--ttggtgaatatattggacatctgaccattt--actttctaagtttagGTGGCAAGCCAAGAGACATATGGAACTTTGGGTGCCATCGTGAAAAGCCAAACTGGCAGTCGGCAAGTTGGTTTTCTCACAAATCGTCATGTTGCAGTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttagagtagctatttgtgcttcccatctgataggctggaagctatatgctcagGTTGCATCCCAAGACGGTTTTGGAACGTTAGGTGCTATTGTGAGGAGTCAAACTGGCAACAGACAAGTTGGTTTTCTCACAAACCGGCATGTTGCAGTTA
atctgat putative branch site (score: 4)
tatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgctttgtcttttgattgatttgtttcttttacttgagatggttctttagagtagctatttgtgcttcccatctgataggctggaagctatatgctcagGTTGCATCCCAAGACGGTTTTGGAACGTTAGGTGCTATTGTGAGGAGTCAAACTGGCAACAGACAAGTTGGTTTTCTCACAAACCGGCATGTTGCAGTTA
-tgctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggctgg