Sequence
atgc intronic sequence ATGC exonic sequencegtagatttcaatgttgagagctgtttttttttctgttgggcaatgctttagaatcagacctcaaggcatcaaatctatgcttatgcagATTAAGTTGGACAAAGAGAAGAAAATCCTCTCCATTCGGGATAGGGGTATTGGTATGACCAAGGAAGATCTTATTAAGAACCTTGGAACGATTGCTAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G141931_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 3'ss of exon 4
-----gtagatttcaatgttgagagctgtttttttttctgttgggcaatgctttagaatcagacctcaaggcatcaaatctatgcttatgcagATTAAGTTGGACAAAGAGAAGAAAATCCTCTCCATTCGGGATAGGGGTATTGGTATGACCAAGGAAGATCTTATTAAGAACCTTGGAACGATTGCTAAAT
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gtatattaaacttcgtagctgatagtc--ttttttgtgtggtatatcttgttttggaaattgacttcatggcatctgctgtgggcacgtgtagATTAAGCTGGATAAGGAGAAGAAGATTCTCTCCATTCGGGATAGGGGTATTGGTATGACCAAGGAAGATCTCATTAAGAACCTTGGGACCATTGCCAAAT
upper sequence: GRMZM2G141931_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G40320.4 (Glycine max), 3'ss of exon 4
-------------------------------------------gtagatttcaatgttgagagctgtttttttttctgttgggcaatgctttagaatcagacctcaaggcatcaaatc---tatgcttatgc---agATTAAGTTGGACAAAGAGAAGAAAATCCTCTCCATTCGGGATAGGGGTATTGGTATGACCAAGGAAGATCTTATTAAGAACCTTGGAACGATTGCTAAAT
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gttagtattgctatattctgattattatgcttttttttttaaggttgtttttggctatatgatttttatgaatacagtctaagcaatgctggtgttttattgttttggaactaaacttaaacatgttggtgctacagATTAAGTTGGACAAGGAAAAGAAAATTCTCTCAATTCGAGACAGAGGTATCGGTATGACGAAGGAGGATTTGATAAAGAATTTGGGGACAATAGCGAAAT
upper sequence: GRMZM2G141931_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 4
-----------gtagatttcaatgttgagagctgtttttttttctgt-tgggcaatgctttagaatcagacctcaaggcatcaaatctatgcttatgcagATTAAGTTGGACAAAGAGAAGAAAATCCTCTCCATTCGGGATAGGGGTATTGGTATGACCAAGGAAGATCTTATTAAGAACCTTGGAACGATTGCTAAAT
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ggttagtattgctaaattctggttattatgaagacagtctaaacaatgccggcggtgctttattgttttgcaactaaactaaaacatgctggtgctacaGATTAAGTTGGACAAGGAAAAGAAAATTCTCTCAATTCGAGACAGAGGTATTGGTATGACGAAGGAGGATTTGATAAAGAATTTGGGGACAATAGCAAAA-
upper sequence: GRMZM2G141931_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT4G24190.2 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------------------------------------gtagatttcaatgttgagagctgttttttt----ttctgttgggcaatgctttagaatcagacct---caaggcatcaaatctatgct----tatgcagATTAAGTTGGACAAAGAGAAGAAAATCCTCTCCATTCGGGATAGGGGTATTGGTATGACCAAGGAAGATCTTATTAAGAACCTTGGAACGATTGCTAAAT
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gttagctacatgtttctcaatatgatttttatgcttgagagtgttgaaaatagagtttcatcgatttgttttatcaaatgctgatctcagtaaatttagcctttcgttggaattgtgtctagtgtaagcttttttcttacctccgtaactatgctatggtatgcagATTAAGCTAGACAAAGCCAAGAAGATTCTTTCTATTCGAGACCGGGGAATTGGTATGACTAAGGAAGACTTAATCAAGAACCTTGGTACCATAGCAAAAT
upper sequence: GRMZM2G141931_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 4
----gtagatttcaatgttg-agagctgtttttttttctgttgggcaatgctttagaatcagacctcaaggcatcaaatctatgcttatgcagATTAAGTTGGACAAAGAGAAGAAAATCCTCTCCATTCGGGATAGGGGTATTGGTATGACCAAGGAAGATCTTATTAAGAACCTTGGAACGATTGCTAAAT
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gttagttaatattactgttgtaaaaattttgtattttcttgtttataatttttctga--cag-tttgaattcttataatatgataaaatgcagATTAAATTAGACAAGGAAAAGAAAATCCTGTCAATTCGTGATAGAGGTATAGGTATGACAAAGGATGATTTAATCAAGAACTTAGGAACAATCGCAAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgggcaatgctttagaatcagacctcaaggcatcaaatctatgcttatgcagATTAAGTTGGACAAAGAGAAGAAAATCCTCTCCATTCGGGATAGGGGTATTGGTATGACCAAGGAAGATCTTATTAAGAACCTTGGAACGATTGCTAAAT
tttagaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagatttcaatgttgagagctgtttttttttctgttgggcaatgctttagaatcagacctcaaggcatcaaatctatgcttatgcagATTAAGTTGGACAAAGAGAAGAAAATCCTCTCCATTCGGGATAGGGGTATTGGTATGACCAAGGAAGATCTTATTAAGAACCTTGGAACGATTGCTAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC