Sequence
atgc intronic sequence ATGC exonic sequence...gtgtagtttgtttgaaggaatgattacgaaatgttgttacctggaaaagttgaagatattattgtataatgcattagtggaattattttcatgtctgcagGTTTGCGGTTTTGATCTCCTACGATCTGAGGGAAGTTCATATGTTTGTGACGTAAATGGATGGAGTTTTGTGAAGAACTCCTATAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G15070.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os03g48300.3 (Oryza sativa), 3'ss of exon 10
gtgtagtttgtttgaaggaatgattacgaaatgttgttacctggaaaagttgaagatattattgtataatgcattagtggaattattt---tcatgtctgcagGTTTGCGGTTTTGATCTCCTACGATCTGAGGGAAGTTCATATGTTTGTGACGTAAATGGATGGAGTTTTGTGAAGAACTCCTATAA
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gttt-gcttgcttctcatcttcttttcatgata--accgccttgcgtttatcatagtatttcctaatattcctattatgttctgatatgacttgtttccatagGTTTGTGGTTTTGATCTCTTAAGGTGTGATGGAAGATCATATGTTTGTGACGTTAATGGATGGAGCTTTGTGAAGAACTCGTACAA
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 8
gtgtagtttgtttgaaggaatgattacgaaatgttgttacctggaaaagttga-agatattattgtataatgcattagtggaattattttcatgtctgcagGTTTGCGGTTTTGATCTCCTACGATCTGAGGGAAGTTCATATGTTTGTGACGTAAATGGATGGAGTTTTGTGAAGAACTCCTATAA
| | | || | || | | || | || | | ||| ||| | | | | | | | | | | | || || |||||||||| || ||||||||| | ||| |||||| | || |||||||||||||| ||||||||||| ||||| || ||||| | ||
gaggatgaagtcttaaaaatggtttgtctta-gtgaagaaaagaaaatgtttttaagtctgctcctcttctcctactataggtcattcttgttgcttgcagGTTTGTGGATTTGATCTCTTGAGATGCGAGGGACGCTCCTATGTTTGTGACGTGAATGGATGGAGCTTTGTTAAAAACTCACACAA
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 10
gtgtagtttgtttgaaggaatgatta-cgaaatgttgttacctggaaaagttgaagatattattgtataatgcattagtggaattattttcatgtctgcagGTTTGCGGTTTTGATCTCCTACGATCTGAGGGAAGTTCATATGTTTGTGACGTAAATGGATGGAGTTTTGTGAAGAACTCCTATAA
| | | |||| || | | || | | || | | | || || ||| | | | | || | | | || || |||||||||| || ||||||||| | ||| |||||| | || |||||||||||||| ||||||||||| ||||| || || || | ||
gaggatgaggttttaaaaatggtttgtctcagtgaagaaaagaaaataattttaagtcttctcttcttctcttacta-taggtcattcttgttgcttgcagGTTTGTGGGTTTGATCTCTTGAGATGCGAGGGACGATCCTATGTTTGTGACGTGAATGGATGGAGCTTTGTTAAAAATTCACACAA
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 10
gtgtagtttgtttgaaggaatgattacgaaatgttg--ttacctggaaaagttgaagatat-tattgtataat-gcattagtggaattattttcat-gtctgcagGTTTGCGGTTTTGATCTCCTACGATCTGAGGGAAGTTCATATGTTTGTGACGTAAATGGATGGAGTTTTGTGAAGAACTCCTATAA
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-----acgcaaccatacatatatttgtaaattctttctttattgagatgagttgttgttaaatgttatgtctttgttctatttatattttccatattgcttgcagGTTTGTGGGTTTGATCTCTTGCGTTGTGAGGGACGCTCATATGTCTGTGATGTGAATGGATGGAGTTTTGTGAAGAACTCTCACAA
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: PP1S70_284V6.1 (Physcomitrella patens), 3'ss of exon 10
---------------------------------------------------------------------------------gtgtagtttgtttgaaggaatgattacgaaatgttgt-tacctggaaaagttgaagatat---tattgtataatgcat-tagtggaattattttcatgtctgcagGTTTGCGGTTTTGATCTCCTACGATCTGAGGGAAGTTCATATGTTTGTGACGTAAATGGATGGAGTTTTGTGAAGAACTCCTATAA
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gtgagcactattttttaacagacccttttagtatttaaaaagaaagagaaaaagaagagaaagaagttaaattccaaaacctcaaggcttacatgaacg--tgcgtaagacttctgacatactaggattacttacctgctccggtacttcgaaatgcttctgacaaaagggataattggcctgcagGTTTGTGGATTTGATTTGCTTCGATCGCAAGGCCGGTCATATGTGTGTGACGTTAATGGGTGGAGTTTTGTTAAGAACTCTTACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagttgaagatattattgtataatgcattagtggaattattttcatgtctgcagGTTTGCGGTTTTGATCTCCTACGATCTGAGGGAAGTTCATATGTTTGTGACGTAAATGGATGGAGTTTTGTGAAGAACTCCTATAA
ttttcat CT-rich tract
atattattgtataatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtagtttgtttgaaggaatgattacgaaatgttgttacctggaaaagttgaagatattattgtataatgcattagtggaattattttcatgtctgcagGTTTGCGGTTTTGATCTCCTACGATCTGAGGGAAGTTCATATGTTTGTGACGTAAATGGATGGAGTTTTGTGAAGAACTCCTATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - agtttgt
- - - - - - -gaaggaa
- - - - - - - - - - - - tacgaaa
- - - - - - - - - - - - - - - - - - - - - ggaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - -gaagata