Sequence
atgc intronic sequence ATGC exonic sequencegtgagcatattatttagtatttacatcatttagaataacgtacaaaaaaccattaggcatcagccagtttaagatattaaatgataatgttgtctctgcgtatgccaatattggtagttatgatttatatacagGCTCCTCAACAGCACCAGAAATATGTGTCTCATGTTCTTGGTCTTCCAATGTCTAAAGTGGTATGCAAAACCAAACGACTTGGTGGTGGCTTTGGTGGTA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G34900.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA15G03870.1 (Glycine max), 3'ss of exon 6
gtgagcatattatttagtatttacatcatttagaataacgtacaaaaaaccattaggcatcagccagtttaagatattaaatgataatgttgtctctgcgtatgccaatattggtagttatgatttatatacagGCTCCTCAACAGCACCAGAAATATGTGTCTCATGTTCTTGGTCTTCCAATGTCTAAAGTGGTATGCAAAACCAAACGACTTGGTGGTGGCTTTGGTGGTA
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--------------------------gaacccgtgtg-tgtgagtgttagtgtttggcttgtattggcctaaatttatggcttg-aaggaaataactgcat-tgtgaaaataac--attgtgttgt---tgcagGCTCCTCAGAAGCACCAGAAATATGTTTCTCATGTTCTTGGCCTTCCCATGTCAAAGGTAGTTTGCAAAACAAAACGAGTTGGTGGTGGATTTGGGGGGA
upper sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA13G41520.1 (Glycine max), 3'ss of exon 7
gtgagcatattatttagtatttacatcatttagaataacgtacaaaaaaccattaggcatcagccagtttaagatattaaatgataatgttgtctctgcgtatgccaatattggtagttatgatttatatacagGCTCCTCAACAGCACCAGAAATATGTGTCTCATGTTCTTGGTCTTCCAATGTCTAAAGTGGTATGCAAAACCAAACGACTTGGTGGTGGCTTTGGTGGTA
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--------------------------tgtgtgtgagtgagtg-agtgtagtgtttggcttgtattggcctaaatttatggcttg-aaggaaataactgcat-tgtgaaaat----aacattgtgttat-tgcagGCTCCTCAGAAGCACCAGAAATATGTTTCCCATGTTCTTGGCCTTCCCATGTCAAAGGTAGTTTGCAAAACAAAGCGAATTGGTGGTGGATTTGGGGGGA
upper sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 6
gtgagcatattatttagtatttacatcatttagaataacgtacaaaaaaccattaggcatca--gccagtttaagatattaaatgataatgttgtctctgcgtatgccaatattggtagttatgat--ttatatacagGCTCCTCAACAGCACCAGAAATATGTGTCTCATGTTCTTGGTCTTCCAATGTCTAAAGTGGTATGCAAAACCAAACGACTTGGTGGTGGCTTTGGTGGTA
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---------------------------------tatt-tgcctagaaatttattagcaatggatgccagttcaac-tgctctgtggtggtcacagccttattta---gaattttgacagatttgatctttatgtgcagTGTCCCCAGAAGCATCAGAAATATGTTTCTCATGTTCTTGGTCTTCCAATGTCAAAAGTAGTTTGCAAAACCAAGCGAATCGGTGGTGGATTTGGGGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgataatgttgtctctgcgtatgccaatattggtagttatgatttatatacagGCTCCTCAACAGCACCAGAAATATGTGTCTCATGTTCTTGGTCTTCCAATGTCTAAAGTGGTATGCAAAACCAAACGACTTGGTGGTGGCTTTGGTGGTA
tagttatgatttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcatattatttagtatttacatcatttagaataacgtacaaaaaaccattaggcatcagccagtttaagatattaaatgataatgttgtctctgcgtatgccaatattggtagttatgatttatatacagGCTCCTCAACAGCACCAGAAATATGTGTCTCATGTTCTTGGTCTTCCAATGTCTAAAGTGGTATGCAAAACCAAACGACTTGGTGGTGGCTTTGGTGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG