Sequence
atgc intronic sequence ATGC exonic sequencegttgacaaaattatgctctgctttgccttttgaaactatccatatgtattgcatgctaatcatgacaggccataacttgaattattgtataaataatgaataaaagcttcggattatgttttgattatggggtttgcctgtgaatgttgtcaggaaacttaaataaacatttgtcttgcagGTTGTTCCAGGATATGGCCATGGTGTTTTGCGTAAAACGGATCCAAGATATATATGCCAAAGAGAGTTTGCCTTGAAGCATCTACCTGATGATCCTCTTT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G60100.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G60100.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA08G16770.1 (Glycine max), 3'ss of exon 15
gttgacaaaattatgctctgctttgccttttgaaactatccatatgtattgcatgctaatcatgacaggccataacttgaattattgtataaataatgaataaaagcttcggattatgttttgattatggggtttgcctgtgaatgttgtcaggaaacttaaataaacatttgtcttgcagGTTGTTCCAGGATATGGCCATGGTGTTTTGCGTAAAACGGATCCAAGATATATATGCCAAAGAGAGTTTGCCTTGAAGCATCTACCTGATGATCCTCTTT
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----------------------------------------------------------------------------tttaata--tacatatcttttcaccaaatgatttagagggaatattactgccaa--cttctcagataatataggctttgg-ctgttgcactttttggatttgcagGTTGTGCCTGGATATGGACATGGGGTTTTACGCCAGACAGATCCAAGATACACATGTCAGAGGGAGTTTGCTTTGAAGCATTTGCCTAATGATCCATATT
upper sequence: AT3G60100.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA15G42300.2 (Glycine max), 3'ss of exon 15
gttgacaaaattatgctctgctttgccttttgaaactatccatatgtattgcatgctaatcatgacaggccataacttgaattat-tgtataaataatgaataaaagcttcggattatgttttgattatggggtttgcctgtga-atgttgtcaggaaacttaaataaacatttgtcttgcagGTTGTTCCAGGATATGGCCATGGTGTTTTGCGTAAAACGGATCCAAGATATATATGCCAAAGAGAGTTTGCCTTGAAGCATCTACCTGATGATCCTCTTT
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-------------------------------------------------------------------------------attaatatgcatatctgttcaccaaatgatgtagagagaatatc-actgccaacttctcagataatataagctttggttgtt---gtgctttttggatttgcagGTTGTGCCTGGATATGGACATGGGGTTTTACGCCAGACAGATCCAAGATACACATGTCAGAGGGAGTTTGCTTTGAAGCATTTGCCTAATGATCCATATT
upper sequence: AT3G60100.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv13s0156g00180.t01 (Vitis vinifera), 3'ss of exon 15
gttgacaaaattatgctctgctttgccttttgaaactatccatatgtattgcatgctaatcatgacaggccataacttgaattattgtataaataatgaataaaagcttcggattatgttttgattatggggtttgcctgtgaatgttgtcaggaaacttaaataaacatttgtct-tgcagGTTGTTCCAGGATATGGCCATGGTGTTTTGCGTAAAACGGATCCAAGATATATATGCCAAAGAGAGTTTGCCTTGAAGCATCTACCTGATGATCCTCTTT
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----------------------------------------------------------------------------tttccctaatatctcaccatctcatactaacgtttgaacctctttag-----gagccctttttgacaa-attgtttccatctctaatttattgttattgtgtgcagGTTGTTCCTGGGTTTGGGCATGGAGTTTTGCGTAAAACAGATCCAAGATATATGTGTCAAAGGGAGTTTGCATTGAAGCACTTGCCTGATGATCCACTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggggtttgcctgtgaatgttgtcaggaaacttaaataaacatttgtcttgcagGTTGTTCCAGGATATGGCCATGGTGTTTTGCGTAAAACGGATCCAAGATATATATGCCAAAGAGAGTTTGCCTTGAAGCATCTACCTGATGATCCTCTTT
tttgtctt CT-rich tract
aaacttaaataaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgacaaaattatgctctgctttgccttttgaaactatccatatgtattgcatgctaatcatgacaggccataacttgaattattgtataaataatgaataaaagcttcggattatgttttgattatggggtttgcctgtgaatgttgtcaggaaacttaaataaacatttgtcttgcagGTTGTTCCAGGATATGGCCATGGTGTTTTGCGTAAAACGGATCCAAGATATATATGCCAAAGAGAGTTTGCCTTGAAGCATCTACCTGATGATCCTCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC