Sequence
atgc intronic sequence ATGC exonic sequencegtctggtggttgttcctttcttccttccaaaactctagtttttacttttaagttcatgaattcttatatcatgttttgtcatatagGTCTTGGTCCTGGAACACTTGTTGGCTCAGCTGCATTTGATCTTTTCCCCATCCACGCTGTTTGTGTCGTTGTGCCAAAAGCTGGAGAACTGAAAAAGAT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G47600.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G47600.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os11g43860.2 (Oryza sativa), 3'ss of exon 2
gtctggtggttgttcctttcttccttccaaaactctagtttttacttttaagttcatgaattcttatatcatgttttgtca--tatagGTCTTGGTCCTGGAACACTTGTTGGCTCAGCTGCATTTGATCTTTTCCCCATCCACGCTGTTTGTGTCGTTGTGCCAAAAGCTGGAGAACTGAAAAAGAT
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-------gtatactttgatcacctcatgcaaatgtttgttccaaagcatccgcaattgtat-ctaattcggtttcttgtgatttgcagGTTTAGGTCCAGGTACCCTTGTGGGTTCTGCTGCATTTGATCTGTTCCCCATACATGCTGTTTGTGTGGTTATGCCAAGGGCAGGCTCTAAGAAAAAGAT
upper sequence: AT2G47600.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G126601_T01 (Zea mays), 3'ss of exon 2
gtctggtggttgttcctttcttccttccaaaac-tctagtttttactt--ttaagttcatgaattc---ttatatcatgttttgtcatatagGTCTTGGTCCTGGAACACTTGTTGGCTCAGCTGCATTTGATCTTTTCCCCATCCACGCTGTTTGTGTCGTTGTGCCAAAAGCTGGAGAACTGAAAAAGAT
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gtagtacaagtgtggttttccttttttcaatatatatactatgtaattggctagcttggtgcacgcacgataggtaatttggagctttgcagGTCTAGGTCCAGGCACACTTGTCGGCTCTGCGGCGTTTGATCTGTTTCCGATCCACGCTGTCTGTGTGCTTATGCCAAGGGCGGGATCAAAGAAGAAGAT
upper sequence: AT2G47600.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G02250.1 (Glycine max), 3'ss of exon 1
------------gtctggtggttgttcctttcttccttccaaaactctagt------ttttacttttaagttcatgaattcttatatcatgttttgtcatatagGTCTTGGTCCTGGAACACTTGTTGGCTCAGCTGCATTTGATCTTTTCCCCATCCACGCTGTTTGTGTCGTTGTGCCAAAAGCTGGAGAACTGAAAAAGAT
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gctgtagtatttgttttattgtgat--cttaattctttctggaattgttgaggggcattagattgttaagcaatgtaataactataac-tgctgaat-attcagGTTTGGGACCCGGAACACTTGTTGGTTCTGCAGCATTTGACCTGTTCCCCATCCACGCTGTTTGTGTAGTAGTTCCAAAAGCAGGAGAGCTGAAGAAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actctagtttttacttttaagttcatgaattcttatatcatgttttgtcatatagGTCTTGGTCCTGGAACACTTGTTGGCTCAGCTGCATTTGATCTTTTCCCCATCCACGCTGTTTGTGTCGTTGTGCCAAAAGCTGGAGAACTGAAAAAGAT
ttttgtc CT-rich tract
tttttacttttaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctggtggttgttcctttcttccttccaaaactctagtttttacttttaagttcatgaattcttatatcatgttttgtcatatagGTCTTGGTCCTGGAACACTTGTTGGCTCAGCTGCATTTGATCTTTTCCCCATCCACGCTGTTTGTGTCGTTGTGCCAAAAGCTGGAGAACTGAAAAAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA