Sequence
atgc intronic sequence ATGC exonic sequence...ttagtttaaagtttggacaggcacttgaataatgttccttccttatgtctatagccttcatttctaggtatttgatgatgaagttttgctattcttttagGTACTGTCCAAGGTGCAAGGAGCAAAGACAAGCTAGCAAAAAGTTGGATTTGTGGAGACTTCCTGAAGTACTAGTCATACATCTAAAGAGATTTTCATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G451357_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os11g28365.1 (Oryza sativa), 3'ss of exon 2
ttagtttaaagtttggacaggc--acttgaataatgttccttccttatgtctatagccttcatttctaggtatttgatgatgaagttttgctattcttttagGTACTGTCCAAGGTGCAAGGAGCAAAGACAAGCTAGCAAAAAGTTGGATTTGTGGAGACTTCCTGAAGTACTAGTCATACATCTAAAGAGATTTTCATTT
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-gtcttttgctcttgtaaaagttaagatgataagttttcctgcctgatgtctcttgttttcacttcaaacagtgtgagtaacaa-tcctattattgaattagGTACTGTCCGAGGTGCAAGGAGCAAAGGCAAGCCAGCAAAAAGCTTGACTTATGGAGACTTCCAGAAGTGCTAGTTATACATTTGAAGAGATTCTCCTTT
upper sequence: GRMZM2G451357_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT2G40930.1 (Arabidopsis thaliana), 3'ss of exon 11
ttagtttaaagtttggacaggc---acttgaataat-gttccttccttatgtctatagccttcatttctaggt-atttgatgatgaagttttgctattcttttagGTACTGTCCAAGGTGCAAGGAGCAAAGACAAGCTAGCAAAAAGTTGGATTTGTGGAGACTTCCTGAAGTACTAGTCATACATCTAAAGAGATTTTCATTT
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-----atggaagttgaacacactgtatttttgcagtagattttagccagtatcttctacttagctgactaaatcaatcaatggtatcatttctctttttttgaagGTTCTGTCCACAATGCAATGAAAGAAGGCAGGCAAGCAAAAAGCTTGATCTGTGGAGGCTTCCTGAGGTCTTAGTCATACATCTAAAGAGATTCTCATAC
upper sequence: GRMZM2G451357_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv00s0174g00150.t01 (Vitis vinifera), 3'ss of exon 11
-----------------------------------------------------------------------ttagtt-taaagtttggacaggcacttgaataatgttccttccttat-gtctatagcc-----ttcatttctaggtatttgat--gatgaagttttgctattctttta--gGTACTGTCCAAGGTGCAAGGAGCAAAGACAAGCTAGCAAAAAGTTGGATTTGTGGAGACTTCCTGAAGTACTAGTCATACATCTAAAGAGATTTTCATTT
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gttaggactctctccccatccctaacacacttctacatcacatgcatatattacataaatatcacattgaattaataatatcatttaatgatgtttactggtaaaggttcttttttaccagatattactgaaatttcacattcaatcactatatatgatttagtaatgtttatctggcaaagGTTCTGTCCACAATGCAAAGAGCAGCGGCAAGCAAGTAAGAAGCTAGATCTATGGAGGCTTCCTGAAGTTCTAGTCATCCATCTAAAGAGGTTCTCATAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtctatagccttcatttctaggtatttgatgatgaagttttgctattcttttagGTACTGTCCAAGGTGCAAGGAGCAAAGACAAGCTAGCAAAAAGTTGGATTTGTGGAGACTTCCTGAAGTACTAGTCATACATCTAAAGAGATTTTCATTT
atttgat putative branch site (score: 5)
ttttgctattctttt putative PPT
tattctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagtttaaagtttggacaggcacttgaataatgttccttccttatgtctatagccttcatttctaggtatttgatgatgaagttttgctattcttttagGTACTGTCCAAGGTGCAAGGAGCAAAGACAAGCTAGCAAAAAGTTGGATTTGTGGAGACTTCCTGAAGTACTAGTCATACATCTAAAGAGATTTTCATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - -caggcac
- - - - - - - - - - - - - - - - tgttcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgct