Sequence
atgc intronic sequence ATGC exonic sequencegtgagtagatacagccgcttgcttgtttttatctcaattgtgctcagaatgaagtgtgtttctggcccttcacttggtttgaattattctctaacatattttgcttctccttgacgcagATTAAGAGAGAGATTAAGATTCTGCAGAACCTCTGCGGTGGGCCTAATATTGTAAAATTGCTCGACATTGTTAGAGATCAGCAGTCTAAGACGCCCAGCT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G23070.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G23070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 2
gtgagtagatacagccgcttgcttgtttttatctcaattgtgctcagaatgaagtgtgtttctggcccttcacttggtttgaattattctctaacatattttgcttctccttgacgcagATTAAGAGAGAGATTAAGATTCTGCAGAACCTCTGCGGTGGGCCTAATATTGTAAAATTGCTCGACATTGTTAGAGATCAGCAGTCTAAGACGCCCAGCT
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-------------gctatctagttgtttat-tttaaagtataataatgat----tgtcttccatccctctggttatatatatatgtaactttgaca-atgattctggttctgaatgcagATCAAGAGGGAAATCAAAATATTACAGAATCTTTGTGGAGGGCCTAATATTGTACAGTTGCTTGACATTGTTAGAGACCAACAGTCGAAGACCCCAAGTC
upper sequence: AT2G23070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA17G17520.2 (Glycine max), 3'ss of exon 2
gtgagtagatacagccgcttgcttgtttttatctcaattgtgctcagaatgaagtgtgtttctggcccttcacttggtttgaattattctctaacatattttgcttctccttgacgcagATTAAGAGAGAGATTAAGATTCTGCAGAACCTCTGCGGTGGGCCTAATATTGTAAAATTGCTCGACATTGTTAGAGATCAGCAGTCTAAGACGCCCAGCT
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----------------atatatatatatatatatatat-atatatatatatatatatatatatatatatatatata-tataaatgtaactctgaca-atgcttctgtttctgaatgcagATCAAGAGGGAAATCAAAATATTACAGAATCTTTGTGGAGGGCCTAATGTTGTAAAGTTGCTTGACATTGTTAGAGACCAGCAATCGAAGACCCCAAGTC
upper sequence: AT2G23070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv07s0129g00270.t01 (Vitis vinifera), 3'ss of exon 2
gtgagtagatacagccgcttgcttgtttttatctcaattgtgctcagaatgaagtgtgtttctggcccttcacttggtttgaattattctctaacatattttgcttctccttgacgcagATTAAGAGAGAGATTAAGATTCTGCAGAACCTCTGCGGTGGGCCTAATATTGTAAAATTGCTCGACATTGTTAGAGATCAGCAGTCTAAGACGCCCAGCT
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--------atacag--atcaagaaggttttctct---ttttgct----gcatagcatatttcacacaataaatttgtgaagatttacttcc--attcatttcttttctgttaaatacagATCAAGAGGGAGATTAAAATACTGCAGAACCTTTGTGGTGGGCCAAATATTGTGAAGTTGCTTGATATTGTTAGAGATCAGCAATCAAAGACCCCAAGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcccttcacttggtttgaattattctctaacatattttgcttctccttgacgcagATTAAGAGAGAGATTAAGATTCTGCAGAACCTCTGCGGTGGGCCTAATATTGTAAAATTGCTCGACATTGTTAGAGATCAGCAGTCTAAGACGCCCAGCT
tattttgcttctcctt CT-rich tract
aattattctctaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtagatacagccgcttgcttgtttttatctcaattgtgctcagaatgaagtgtgtttctggcccttcacttggtttgaattattctctaacatattttgcttctccttgacgcagATTAAGAGAGAGATTAAGATTCTGCAGAACCTCTGCGGTGGGCCTAATATTGTAAAATTGCTCGACATTGTTAGAGATCAGCAGTCTAAGACGCCCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA