Sequence
atgc intronic sequence ATGC exonic sequence...acgtggattgaaatttgacgttttctaccacattttttttccagaaaaactgcttagatttgctgctatgtcatcctctttatactttttttttctgcagCTCTCTTTTCAGATGTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os04g58750.1 (Oryza sativa), 3'ss of exon 8
---acgtggattgaaatttgacgttttctaccacattttttttccagaaaaactgcttagatttgctgctatgtcatcctctttatactttttttttctgcagCTCTCTTTTCAGATGTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTG
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tatacgtagttgaaactttgtcatgctgaatga--tttagcaaccatcctcgttatattgttatgctgttgcatgatccattgttttccttgtttg-ctgcagCTCTCATTTCAGATGTGGACCAATCAAATGCAAGATACATTGAACTCAAAGAAGAAGGGTGACAATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTG
upper sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA05G37870.1 (Glycine max), 3'ss of exon 10
-acgtggattgaaatttgacgttttctaccacattttttttccagaaaaactgcttagatttgctgcta--tgtcatcctctttatactttttttttctgcagCTCTCTTTTCAGATGTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTG
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tatgtcttttcacatttc---tattataatgacctgtttttccatgtagattggctgaacaggttgtccactgatttctttattttattttcctatcaagcagCTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACGTTGAACTCAAAGAAGAAAGGGGATGCTGCTTTTCGGCACAAGGATTTTAAAACTGCAATTG
upper sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA08G01730.1 (Glycine max), 3'ss of exon 10
-acgtggattgaaatttgacgttttctaccacattttttttccagaaaaactgcttagatttgctgctatgtcatcctctttatactttttttttct---gcagCTCTCTTTTCAGATGTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTG
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tatgtcttttcacatttg---tatcatattgacctgtttttccatgtagactggctgaatggattgttccctgatt-tctttatttcgttttcctatcaagcagCTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACATTGAACTCAAAGAAGAAAGGGGACGCTGCTTTTCGGCACAAGGATTTTAAAACTGCAATTG
upper sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 9
lower sequence: AT4G00710.1 (Arabidopsis thaliana), 3'ss of exon 9
------------acgtggattgaaatttgacgttttctaccacattttttttccagaaaaactgcttagatttgctgctatgtcatcctctttatactttttttttctgcagCTCTCTTTTCAGATGTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTG
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gtaccttttcagaattatgttggaagaatcagtggtttggctc-tgttaatcagtgaatagtttctttcttggttcttcatggtgttgcgttactttggtttggcaatgcagCTCTCGTTTCATATGTGGACAGACCAGATGCAAGAGTCTTTGAACTCGAAGAAGAAGGGTGATGTGGCTTTCAGGCAAAAAGACTTTAGAGAGGCCATCG
upper sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 10
acgtggattgaaatttgacgttt-tctaccacattttttttccagaaaaactgcttagatttgctgctatgtcatcctctttatactttttttttct-gcagCTCTCTTTTCAGATGTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTG
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-gttaaattggaaccagatctgtgtccactttgttaaatggtgtagtatcaggcactaagcta-tacatggtcttgctaattattgtttttctagcttgcagCTTTCATTCCAGATGTGGACCAACCAGATGCAAGAAACATTGAACTCAAAGAAAAAGGGTGATGTTGCTTTCCGGCACAAAGATTTTAGAGCTGCAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaactgcttagatttgctgctatgtcatcctctttatactttttttttctgcagCTCTCTTTTCAGATGTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTG
tgtcatcctctttata CT-rich tract
tctttatacttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acgtggattgaaatttgacgttttctaccacattttttttccagaaaaactgcttagatttgctgctatgtcatcctctttatactttttttttctgcagCTCTCTTTTCAGATGTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC