Sequence
atgc intronic sequence ATGC exonic sequencegtagtgtaagcaccaacttgtgatttatcttttaatctttagtctcttactgcaacatcctcaaaagctacaatcatttgatatgaggcaatttacagGGAAGATTTTGCGGATTACGCAGAGTTTTGTTTCAAACATTTGGAGATAGAGTGAAGAACTGGATGACGTTTAACGAGCCTCGTGTAGTAGCTGCTCTAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G18070.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G18070.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os01g32364.1 (Oryza sativa), 3'ss of exon 5
gtagtgtaagcaccaacttgtgatttatcttttaatctttagtctcttactgcaacatcctcaaaagctacaatcatttgatatg---aggcaatttacagGGAAGATTTTGCGGATTACGCAGAGTTTTGTTTCAA-ACATTTGGAGATAGAGTGAAGAACTGGATGACGTTTAACGAGCCTCGTGTAGTAGCTGCTCTAG
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ttttaacaatcaccatgcagcagcagattgtgcattcctgaaactgtagat-caagatgatccaatatatgtatctactggtttgtttttgaatcacgcagGGAAGCATTCGCAGACTACGCTGAGTTTTGCTTCAAGACATTTGGCGACAGAGTGAAGAACTGGATGACATTTAACGAACCGAGAGTTGTTGCCGCTCTA-
upper sequence: AT3G18070.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G30910.1 (Glycine max), 3'ss of exon 5
gtagtgtaagcaccaacttgtgatttatcttttaatctttagtctcttactgcaacatcctcaaaagctacaatcatttgatatgag-----gcaatttacagGGAAGATTTTGCGGATTACGCAGAGTTTTGTTTCAA-ACATTTGGAGATAGAGTGAAGAACTGGATGACGTTTAACGAGCCTCGTGTAGTAGCTGCTCTAG
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-tttctcagattaatatttgaagtttgtttgataaaaagta-tatcttaacatg-cttataatgcaactatgtgtaactaacatgaatgcttgaattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAGAGTTAAGAATTGGATGACGTTTAACGAACCTCGTGTGGTGGCTGCTCTT-
upper sequence: AT3G18070.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G11310.1 (Glycine max), 3'ss of exon 5
---------------------------------------------gtagtgtaagcaccaacttgt-gatttatcttttaatctttagtctcttactgcaacatcctcaaa--agctacaatcatttgatatgag-gc---aatt-tacagGGAAGATTTTGCGGATTACGCAGAGTTTTGTTTCAA-ACATTTGGAGATAGAGTGAAGAACTGGATGACGTTTAACGAGCCTCGTGTAGTAGCTGCTCTAG
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gtaagtaccaatatatatacaagagcaaaaatggattattgatcttttgaatacatgttttctcatagattaatatttgaagtttgaagtatatgttagcatgcttacaatgcaattctgcataactaatgtgaatgcttaaattgtacagGAATGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAGAGTTAAGAATTGGATGACGTTTAATGAACCTCGTGTGGTGGCTGCTCTT- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcttactgcaacatcctcaaaagctacaatcatttgatatgaggcaatttacagGGAAGATTTTGCGGATTACGCAGAGTTTTGTTTCAAACATTTGGAGATAGAGTGAAGAACTGGATGACGTTTAACGAGCCTCGTGTAGTAGCTGCTCTAG
atttgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtgtaagcaccaacttgtgatttatcttttaatctttagtctcttactgcaacatcctcaaaagctacaatcatttgatatgaggcaatttacagGGAAGATTTTGCGGATTACGCAGAGTTTTGTTTCAAACATTTGGAGATAGAGTGAAGAACTGGATGACGTTTAACGAGCCTCGTGTAGTAGCTGCTCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT