Sequence
atgc intronic sequence ATGC exonic sequence...tccttttgtgatagtgaaagacaagatgaattatgtttcagtaatattttgtgctgccttattggcttgcttgaacattttgctactcatttctatgcagTGTCTTGGTTCACAGTGGAGGAGTGCATGGAGGGCATTATTATGCTTTTATTAGGCCAACACTTTCAGATCAGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G11910.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G11910.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 10
--tccttttgtgatagtgaaagacaagatgaattatgtttcagtaatattttgtgctgccttattggcttgcttgaacat--tttgctactcatttctatgcagTGTCTTGGTTCACAGTGGAGGAGTGCATGGAGGGCATTATTATGCTTTTATTAGGCCAACACTTTCAGATCAGTG
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gatgaccttgtc----tatgatgcaatttatgcagtgttatggtagcatttgcttctgagatatgcatacgtattaacatggctttttcctttcctttttgcagTGTTTTGGTTCATAGCGGTGGTGTGCATGGTGGACATTATTATGCTTTTATCAGGCCGACCCTTTCTGATCAGTG
upper sequence: AT3G11910.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ19227 (Selaginella moellendorffii), 3'ss of exon 10
tccttttgtgatagtgaaagacaagatgaattatgtttcagtaatattttgtgctgccttattggcttgcttgaacattttgctactcatttcta-tgcagTGTCTTGGTTCACAGTGGAGGAGTGCATGGAGGGCATTATTATGCTTTTATTAGGCCAACACTTTCAGATCAGTG
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----------------------------------gtagcgtatatgttttgggccttcgcattg-----------cagtacggtaataagtgcaagtgcagTGTCCTGGTTCACAGCGGAGGGGTTCACGGAGGACACTATTATGCTTTTATCCGGCCTACACTTTCCGATCAATG
upper sequence: AT3G11910.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ13603 (Selaginella moellendorffii), 3'ss of exon 10
tccttttgtgatagtgaaagacaagatgaattatgtttcagtaatattttgtgctgccttattggcttgcttgaacattttgctactcatttcta-tgcagTGTCTTGGTTCACAGTGGAGGAGTGCATGGAGGGCATTATTATGCTTTTATTAGGCCAACACTTTCAGATCAGTG----------------------------------------------------------------------------------------------------------------------------------------
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----------------------------------gtagcgtatatgttttgggccttcgcattg-----------cagtacggtaataagtgcaagtgcagtgtcctggttcacagcggaggggttcacggaggacactattatgcttttatccggcctacactttccgatcaatggtgggtgtcgttcgctgttgttttgtggagacaaactttataacggactatttgcagGTACAAGTTCGACGATGAACGGGTGACAAAGGAGGAAGTTAAAAGGGCTTTTGAGGAGCAGTATGGTGGAGAAGAGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgtgctgccttattggcttgcttgaacattttgctactcatttctatgcagTGTCTTGGTTCACAGTGGAGGAGTGCATGGAGGGCATTATTATGCTTTTATTAGGCCAACACTTTCAGATCAGTG
ctcatttct CT-rich tract
aacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccttttgtgatagtgaaagacaagatgaattatgtttcagtaatattttgtgctgccttattggcttgcttgaacattttgctactcatttctatgcagTGTCTTGGTTCACAGTGGAGGAGTGCATGGAGGGCATTATTATGCTTTTATTAGGCCAACACTTTCAGATCAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - aaagaca
- - - - - - - - - - - -agatgaa