Sequence
atgc intronic sequence ATGC exonic sequencegtaagaattaactacttctcattatggtttagtttgtttggttctgaatgaaaacaaagtataaatattttctgaaacctgtcagtagtttgtaaaagagaaatcaattaagttaaacattgtttcagGTATGAAGTTGATACAGACGCATTTCTTTCTGTATTGGCCCTTGAACCTATACAAAAGATGGAATCCATCCCAACCATTGTAGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G02940.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G02940.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G32300.1 (Glycine max), 3'ss of exon 10
gtaagaattaactacttctcattatggtttagtttgtttggttctgaatgaaaacaaagtataaatattttctgaaacctgtcagtagtttgtaaaagagaaatcaattaagttaaacattgtttcagGTATGAAGTTGATACAGACGCATTTCTTTCTGTATTGGCCCTTGAACCTATACAAAAGATGGAATCCATCCCAACCATTGTAGAG
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-----------------------atatatagcttcagttgttttagtagagtaactaggttttact-taatttgacttttgtca----tgtgctgaatttaaaggatttcagattgtttgtatgctagGTATGAAGTTGACACAGATGCATTTCTTTCTGTTTTAGCCCTTCAACCAATTCCAAACATGGATTCTGTCCCCACCATTGTTGAG
upper sequence: AT5G02940.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G35310.1 (Glycine max), 3'ss of exon 10
gtaagaattaactacttctcattatggtttagtttgtttggttctgaatgaaaacaaagtataaatattttctgaaacctgtcagtagtttgtaaaagagaaatcaattaagttaaacattgtttcagGTATGAAGTTGATACAGACGCATTTCTTTCTGTATTGGCCCTTGAACCTATACAAAAGATGGAATCCATCCCAACCATTGTAGAG
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-------------------tgttttagtagagt--aactagtttttacttaatttgacttttgt-catgtgctgaa---tttcacttaaatgaagttaatggat---ttcagattgtttgtatgctagGTATGAAGTTGACACAGATGCATTTCTTTCTGTTTTAGCCCTTCAACCAATTCCAAACATGGATTCTGTCCCCACCATTGTTGAG
upper sequence: AT5G02940.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv05s0020g04630.t01 (Vitis vinifera), 3'ss of exon 10
gtaagaattaactacttctcattatggtttagtttgtttggttctgaatgaaaacaaagtataaatattttctgaaacctgtcagtagtttgtaaaagagaaatcaattaagttaaacattgtttcagGTATGAAGTTGATACAGACGCATTTCTTTCTGTATTGGCCCTTGAACCTATACAAAAGATGGAATCCATCCCAACCATTGTAGAG
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---------------tcttgacaagtccatggtttaatctgtttacaagttgcacaaaccaaaattatc-----gaatttctc-------tgttgaagtctactgattttagattctaatt-tatcagGTATGAAGTTGATACAGATGCATTTCTATCTGTACTAGCCCTTCAACCTATTTCAAAAATGACTTCTGTCCCCACCATTGTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaacctgtcagtagtttgtaaaagagaaatcaattaagttaaacattgtttcagGTATGAAGTTGATACAGACGCATTTCTTTCTGTATTGGCCCTTGAACCTATACAAAAGATGGAATCCATCCCAACCATTGTAGAG
ttgtttc CT-rich tract
aaatcaattaagttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaattaactacttctcattatggtttagtttgtttggttctgaatgaaaacaaagtataaatattttctgaaacctgtcagtagtttgtaaaagagaaatcaattaagttaaacattgtttcagGTATGAAGTTGATACAGACGCATTTCTTTCTGTATTGGCCCTTGAACCTATACAAAAGATGGAATCCATCCCAACCATTGTAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA