Sequence
atgc intronic sequence ATGC exonic sequence...gtcctcgcagataaggacacgagttgctgttattttaacaccgttattgtttcattacattttgttcagcaaactggtgactgatcattgctgtgtacagGTGCGGGAGATGCCAAATGTTTTAATTCTTCCGCGGAGTGCAGACTACAGCGAAGAAGTGTGGATGGAAATAAGAGAGAAAGCAATAACTATGTTACAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g03460.1 (Oryza sativa), 3'ss of exon 2
--gtcctcgcagataaggacacgagttgctgttattttaacaccgttattgtttcattacattttgttcagcaaactggtgactgatcattgctgtgtacagGTGCGGGAGATGCCAAATGTTTTAATTCTTCCGCGGAGTGCAGACTACAGCGAAGAAGTGTGGATGGAAATAAGAGAGAAAGCAATAACTATGTTACAGT
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ttttctgcattgctatggtggtg--ccacttgttcatcatccatcttataaaaaaagaacttgttgttcagcaaaatgatggatactatttatttgacatagGTAAGGGAGATGCCAAATGTTTTAATTCTTCCTCGAAGTGCAGACTACAGTGAAGAAGTGTGGATGGAAATAAGAGAGAAAGCAATCACGATATTGCAGT
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G39090.1 (Glycine max), 3'ss of exon 3
---gtcctcgcagataaggacacgagttgctgttattttaacaccgttattgtttcattacattttgttcagcaaactggtgactgatcattgctgtgtacagGTGCGGGAGATGCCAAATGTTTTAATTCTTCCGCGGAGTGCAGACTACAGCGAAGAAGTGTGGATGGAAATAAGAGAGAAAGCAATAACTATGTTACAGT
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ctcataatcatatatatattagattacgtctgtcagtctacaacaatgatagttttaatagatagattatactaacatact--ttgtgtgtgtctgcgt-cagGTGAAGGAGATGCCTAACGTGTTGATACTTCCTCGAAGTGCAGATTACAGTGAAGAGGTTTGGATGGAAATAAGGGAGAAAGCTATATCTATATTGCAAA
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G47240.1 (Glycine max), 3'ss of exon 3
gtcctcgcag--ataaggacacgagttgctgttattttaacaccgttattgtttcattacattttgttcagcaaactggtgactgatcattgctgtgtacagGTGCGGGAGATGCCAAATGTTTTAATTCTTCCGCGGAGTGCAGACTACAGCGAAGAAGTGTGGATGGAAATAAGAGAGAAAGCAATAACTATGTTACAGT-
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ccactcacaatcatatatatatatatgtctatcagtctacaacaatgatagttttaatacatagatgatgctaacatact--ttgtgcatgtctgcat-caggTGAAGGAGATGCCTAACGTATTGATACTTCCCCAAAGTGCAGATTACAGTGAAGAGGTTTGGATGGAAATAAGGGAGAAAGCTATATCTATACTACAAAC
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT1G01510.1 (Arabidopsis thaliana), 3'ss of exon 3
------------gtcctcgcagataaggacacgagttgctgttattttaacaccgttattgtttcattacattttgttcagcaaactgg--tgactgatcattgctgtg--tacagGTGCGGGAGATGCCAAATGTTTTAATTCTTCCGCGGAGTGCAGACTACAGCGAAGAAGTGTGGATGGAAATAAGAGAGAAAGCAATAACTATGTTACAGT
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gtatgactttcttttccagtgactaaacttcacatttgcgcctgcct--attctcttgtttcatcatcttcttctgttgtttatcctgcatccattatatcttgttttcattgcagGTGAAGGAAATGCCAAATGTGTTAATTCTACCTCGCAGTGCAGATTACAGTGAGGAAGTATGGATGGAGATAAGGGAGAAGGCTATCTCTATCTTGCATT
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 4
lower sequence: PP1S35_361V6.1 (Physcomitrella patens), 3'ss of exon 3
----gtcctcgcagataaggacacgagttgctgttattttaacaccgt-tattgtttcattac-attttgttcagcaaactggtgactga----------tcattgctgtgtacagGTGCGGGAGATGCCAAATGTTTTAATTCTTCCGCGGAGTGCAGACTACAGCGAAGAAGTGTGGATGGAAATAAGAGAGAAAGCAATAACTATGTTACAGT
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gtacgtcgctatcttcaactttgcaaatcgcttcccacttcccactgcatggtgtttcatttctaatgaaatcaatgcgtcgttaactaaatgttatatttcttcatcatatacagGTGAGGGAGATGCCAAACGTCTTGATTCTTCCTCGCAGTGCTGACTACAGCGAGGAAGTGTGGGCCGAGATACGGTCCAAGGCCATCTCTGTGCTGTACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtttcattacattttgttcagcaaactggtgactgatcattgctgtgtacagGTGCGGGAGATGCCAAATGTTTTAATTCTTCCGCGGAGTGCAGACTACAGCGAAGAAGTGTGGATGGAAATAAGAGAGAAAGCAATAACTATGTTACAGT
gactgat putative branch site (score: 3)
attacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcctcgcagataaggacacgagttgctgttattttaacaccgttattgtttcattacattttgttcagcaaactggtgactgatcattgctgtgtacagGTGCGGGAGATGCCAAATGTTTTAATTCTTCCGCGGAGTGCAGACTACAGCGAAGAAGTGTGGATGGAAATAAGAGAGAAAGCAATAACTATGTTACAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA