Sequence
atgc intronic sequence ATGC exonic sequencegtttgtagtacttgccacatatttagtgggtttataaaagttagaagtagacaagtagatggaaccgtttgttatttttcttatgcttgatttgccaatgaatccagTGGTGGCTACAACATTAAGACCGGGCCAGGCTGCAGCATCGAGCTGATGAAATTTGACATGGGAGGCTCTGCAGCTGTATTTGGTGCAGCTAAAGCTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G126913_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g55140.1 (Oryza sativa), 3'ss of exon 4
gtttgtagtacttgccacatatttagtgggtttataaaagttagaagta---------gacaagtagatggaaccgtttgt-----tattt-----ttcttatgcttgatttgccaatgaatc--cagTGGTGGCTACAACATTAAGACCGGGCCAGGCTGCAGCATCGAGCTGATGAAATTTGACATGGGAGGCTCTGCAGCTGTATTTGGTGCAGCTAAAGCTTTG
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gtttgtgaaacatat-gcatattttgtgaact-attgcagtaacatacatcattgtgtaacataaatatgccatcttttatatggataattgttggttcttacaattgattaaccgatttttttgcagTGGTGGCTACAACATTAAGACTGGACCAGGCTGCAGTATTGAGCTGATGAAGTTTGACATGGGAGGCTCTGCAGCAGTTTTTGGTGCAGCAAAAGCTTTG
upper sequence: GRMZM2G126913_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT2G24200.3 (Arabidopsis thaliana), 3'ss of exon 5
gtttgtagtacttgccacatatttagtgggtttataaaagttagaagtagacaagtagatggaaccg-tttgttatttttcttatgcttgatttg-----ccaatgaatccagTGGTGGCTACAACATTAAGACCGGGCCAGGCTGCAGCATCGAGCTGATGAAATTTGACATGGGAGGCTCTGCAGCTGTATTTGGTGCAGCTAAAGCTTTG
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----------gtaactaatcattctgtattgctttgaattttactctgttacgagctggtatcttttctttgttattttagtggttgttgatttgaatatcttgtgtacacagTGGTGGCTACAACATTAAGACTGGACCTGGCTGCTCAATTGAGCTCATGAAATTCGACATGGGCGGTTCAGCTGCTGTTCTTGGCGCTGCGAAAGCTATT
upper sequence: GRMZM2G126913_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT4G30920.1 (Arabidopsis thaliana), 3'ss of exon 4
gtttgtagtacttgccacatatttagtgggtttataaaagttagaagtagacaagtagatggaacc-gtttgttatttttcttatgcttgatttgccaatgaatccagTGGTGGCTACAACATTAAGACCGGGCCAGGCTGCAGCATCGAGCTGATGAAATTTGACATGGGAGGCTCTGCAGCTGTATTTGGTGCAGCTAAAGCTTTG
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-------------gtactagagct-gttggcttctgtttgccgcatcaatctctttatttaatacttattagttattgaccagatggtt--tttgttca------cagCGGTGGCTACAACATTAAAACCGGGCCTGGCTGCTTAATTGAGCTCATGAAATTCGATATGGGAGGTTCAGCTGCTGTTCTTGGCGCTGCAAAAGCCATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtagatggaaccgtttgttatttttcttatgcttgatttgccaatgaatccagTGGTGGCTACAACATTAAGACCGGGCCAGGCTGCAGCATCGAGCTGATGAAATTTGACATGGGAGGCTCTGCAGCTGTATTTGGTGCAGCTAAAGCTTTG
gcttgat putative branch site (score: 5)
tttgttatttttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtagtacttgccacatatttagtgggtttataaaagttagaagtagacaagtagatggaaccgtttgttatttttcttatgcttgatttgccaatgaatccagTGGTGGCTACAACATTAAGACCGGGCCAGGCTGCAGCATCGAGCTGATGAAATTTGACATGGGAGGCTCTGCAGCTGTATTTGGTGCAGCTAAAGCTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT