Sequence
atgc intronic sequence ATGC exonic sequencegtggcgctttttaacctttcacactcatcgtaccttgctgttgtattgtttaagaggggctgtctttaccttgtggagtattgcttaagagaggttatcttgtctctttaacagATGATATGGAAATTGCTCCAGACTTCTTTGATTACTTTGAGGCTGCAGCTAGTCTCATGGATAGGGATAA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G38240.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G38240.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA04G00200.1 (Glycine max), 3'ss of exon 10
gtggcgctttttaacctttcacactcatcgtaccttgctgttgtatt-gtttaagaggggctgtctttaccttgtggag-tattgcttaagagaggttatcttgtctctttaacagATGATATGGAAATTGCTCCAGACTTCTTTGATTACTTTGAGGCTGCAGCTAGTCTCATGGATAGGGATAA
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----------------taaaataattaagggaccaaattaataattaagctttttttaatctttttatcattggtaaaaacatggaagctaatacaataactttatccaatctcagATGACATGGAAATAGCACCTGATTTCTTTGATTATTTTGAAGCTGCAGCGAGTCTCCTTGAGAAGGATAA
upper sequence: AT4G38240.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 3
gtggcgctttttaacctttcacactcatcgtaccttgctgttgtattgtttaagaggggctgtctttaccttgtggagtattgctta-----agagaggttatcttgtctctttaacagATGATATGGAAATTGCTCCAGACTTCTTTGATTACTTTGAGGCTGCAGCTAGTCTCATGGATAGGGATAA
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gtgccaatatctgtgctttaaaatatctttcaccttttttctcctttatttt-------tttactagagaatggggaataatgtctatgctaagaaaaattctgttgt-tggaaagcagATGATATGGAAATTGCCCCTGATTTCTTTGACTACTTTGAGGCTGCCGCAGCTCTCCTGGACAATGATAA
upper sequence: AT4G38240.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 10
gtggcgctttttaacctttcacactcatcgtaccttgctgttgtattgtttaagaggggctgtctttaccttgtggagtattgctta-----agagaggttatcttgtctctttaacagATGATATGGAAATTGCTCCAGACTTCTTTGATTACTTTGAGGCTGCAGCTAGTCTCATGGATAGGGATAA
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gtgccaatatctgtgctttaaaatatctttcaccttttttctcctttatttt-------ttcactagagaatggggaataatgtctatgctaagaaaaattctgttgt-tggaaagcagATGATATGGAAATTGCCCCTGATTTCTTTGACTACTTTGAGGCTGCCGCAGCTCTCCTGGACAATGATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtctttaccttgtggagtattgcttaagagaggttatcttgtctctttaacagATGATATGGAAATTGCTCCAGACTTCTTTGATTACTTTGAGGCTGCAGCTAGTCTCATGGATAGGGATAA
ttatcttgtctcttt CT-rich tract
ttatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggcgctttttaacctttcacactcatcgtaccttgctgttgtattgtttaagaggggctgtctttaccttgtggagtattgcttaagagaggttatcttgtctctttaacagATGATATGGAAATTGCTCCAGACTTCTTTGATTACTTTGAGGCTGCAGCTAGTCTCATGGATAGGGATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA