Sequence
atgc intronic sequence ATGC exonic sequencegtttctgctaatttttttgtgtgtttaccattttacttcacgtttctctgaagtcatctttagcttttaagctgtctgtcaattttggcttattcagAATGACCACGATCCATCAAAGTTAATGGCTGAGACACCGTGCAAGTTGATGAGGTATTTGATTTCCGACAACAGCAATATTGACGCTGATACGCCTTATG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G36160.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G36160.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: LOC_Os05g22940.1 (Oryza sativa), 3'ss of exon 20
------------------------------------gtttctgctaatttttttgtgtgtttaccattttacttcacgtttctctgaagtcatctttagcttttaagctgtctgtcaattttggcttattcagAATGACCACGATCCATCAAAGTTAATGGCTGAGACACCGTGCAAGTTGATGAGGTATTTGATTTCCGACAACAGCAATATTGACGCTGATACGCCTTATG
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gtaatgatagccttgttctttttagttctagtcacggtgtttgcttgctatttgttgtatctatttaatgcattcactaattactatattagtttgcatcatcaagttaaaatggaacttctttcttg--cagAATGACCATGACCCATCAAAGTTATTAGCTGAGACACCATGCAAACTTCTTCGTTTCTTGGTTGCTGATGGTGCTCATGTTGATGCTGATGTACCATATG
upper sequence: AT1G36160.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 18
--------------------------------------------------------------------------------gtttctgctaatttttttgtgtgtttaccat--tttacttcacgtttctctgaagtcatctttagcttttaagctgtctgtcaattttggcttatt--cagAATGACCACGATCCATCAAAGTTAATGGCTGAGACACCGTGCAAGTTGATGAGGTATTTGATTTCCGACAACAGCAATATTGACGCTGATACGCCTTATG
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gtaaatactcccttcttcctttatattcttgttgtctgattgtataactttgctagattatttgtataatttattattgcatttcaccccactaacttatctttaaaagatgggttctgttgtttgcttcagcaggcgacatcacataagaaaattgtgattaatctttgttttcttgcagAATGACCATGATCCATCAAAGTTATTAGCTGAGACACCCTGCAAACTTCTTCGTTTCTTGGTTGCTGATGGTGCTCATGTTGATGCGGATGTACCATACG
upper sequence: AT1G36160.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: AC197672.3_FGT002 (Zea mays), 3'ss of exon 18
---------------------------------------------------------------------------------------gtttctgctaatttttttgtgtgtttaccattttacttcacgtttct-ctgaagtcatctttagcttttaagctgtctgtcaattttggcttatt-cagAATGACCACGATCCATCAAAGTTAATGGCTGAGACACCGTGCAAGTTGATGAGGTATTTGATTTCCGACAACAGCAATATTGACGCTGATACGCCTTATG
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gtaaatactctcttctttttttttatgttcttggtatcaattgggcaacttccgccagacttttctgtatcatttattattgcatttccctccactaccttacctttaaaaggtgggttctgttgtttgcttctgcaggagacatcacctaaga--aaattgtgactcatccttgttttcttgcagAATGACCATGATCCATCAAAGTTATTAGCTGAGACTCCCTGCAAACTTCTTCGCTTTTTGGTTGCTGATGGTGCTCATGTTGGTGCGGATGTGCCATATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctctgaagtcatctttagcttttaagctgtctgtcaattttggcttattcagAATGACCACGATCCATCAAAGTTAATGGCTGAGACACCGTGCAAGTTGATGAGGTATTTGATTTCCGACAACAGCAATATTGACGCTGATACGCCTTATG
cttattc CT-rich tract
tcaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttctgctaatttttttgtgtgtttaccattttacttcacgtttctctgaagtcatctttagcttttaagctgtctgtcaattttggcttattcagAATGACCACGATCCATCAAAGTTAATGGCTGAGACACCGTGCAAGTTGATGAGGTATTTGATTTCCGACAACAGCAATATTGACGCTGATACGCCTTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT