Sequence
atgc intronic sequence ATGC exonic sequence...accctttatgaaattctgccactatgctagctgttctatctagtctctattgatagcagagtcacatttgactgtgtttttttttgttttttgttttcagATAACAGATGCATGCTCAGCTTGCTTTGAACAACGCACTGTTTTCACGCAGCAAGTCTTAGCAAAGGCCCTCGGTCAGATG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G27595.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G27595.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA04G09480.1 (Glycine max), 3'ss of exon 20
accctttatgaaattctgccactatgctagctgttctatctagtctctattgatagcagagtcacatttgactgtgtttt---tttttgttttttgttttcagATAACAGATGCATGCTCAGCTTGCTTTGAACAACGCACTGTTTTCACGCAGCAAGTCTTAGCAAAGGCCCTCGGTCAGATG
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--gctgtgtgatctttttcatcaatgttagttgcacaagtcatattttatcaacctaaaaaatgttagtgg-tgaattctgaattatttttttgcaccatcagATAACAGATGCTTGCTCAGCTTGTTTTGAGCAACGTACAGTGTTCACGCAACAGGTTCTGGCAAAGGCATTGAACCAGATG
upper sequence: AT1G27595.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA06G09580.1 (Glycine max), 3'ss of exon 19
accctttatgaaattctgccactatgctagctgttctatctagtctctattgatagcagagtcacatttgactgtgtttt---tttttgttttttgttttcagATAACAGATGCATGCTCAGCTTGCTTTGAACAACGCACTGTTTTCACGCAGCAAGTCTTAGCAAAGGCCCTCGGTCAGATG
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--gctgtgtgatcttattcatcaatgttagttgcacaagtcatattttatcaacctaaaaaatgtaagcag-tgaattctgaattatttttttgcaccatcagATAACAGATGCTTGCTCGGCTTGTTTTGAGCAACGCACAGTGTTCACACAACAGGTTCTGGCGAAGGCATTGAACCAGATG
upper sequence: AT1G27595.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv18s0001g08140.t01 (Vitis vinifera), 3'ss of exon 16
accctttatgaaattctgccactatgctagctgttctatctagtctctattgatagcagagtcacatttg--actgtgtttttttt-----tgttttttgttttcagATAACAGATGCATGCTCAGCTTGCTTTGAACAACGCACTGTTTTCACGCAGCAAGTCTTAGCAAAGGCCCTCGGTCAGATG
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---ctctaggtggt--tacagctttccaagtcttggtacc--gtcatgatttcctgttgcattgcattcattataatgctttttgtgctgctgtttcatgatttcagATAACAGAAGCTTGCTCTGCTTGTTTTGAGCAACGTACGGTTTTCACACCACAGGTTTTGGCAAAGGCCTTGAACCAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctattgatagcagagtcacatttgactgtgtttttttttgttttttgttttcagATAACAGATGCATGCTCAGCTTGCTTTGAACAACGCACTGTTTTCACGCAGCAAGTCTTAGCAAAGGCCCTCGGTCAGATG
ctgtgtttttttttgt CT-rich tract
tgtttttttttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accctttatgaaattctgccactatgctagctgttctatctagtctctattgatagcagagtcacatttgactgtgtttttttttgttttttgttttcagATAACAGATGCATGCTCAGCTTGCTTTGAACAACGCACTGTTTTCACGCAGCAAGTCTTAGCAAAGGCCCTCGGTCAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - -atgaaat
- - - - - - - - - - - - - - - ctgttct