Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttctctgattttaaccagattgtttttgaaagtttcttagtattaaagactttttctggtcctattgctttttgtctgcgcagTGTGATTGTTGAGGCTCTGAAAGTTGACAGTTTGCAGAAGCTTTGCTCGTCTTTGGAACCTATCCTCCGCCGAGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G25800.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G25800.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 3
--------gtgagtttctctgattttaac-cagattgtttttgaaagtttcttagtattaaagactttttctggtc--ctattgctttttgtctgcgcagTGTGATTGTTGAGGCTCTGAAAGTTGACAGTTTGCAGAAGCTTTGCTCGTCTTTGGAACCTATCCTCCGCCGAGTT
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atagggttttatttcttattaattataattcatctagttgtttctaatttatatttattgttagtttcatataattgattgatgcacatacttttcgcagTGTAATTGTGGAAGCTCTGAAGGTGGACAGTTTGCAGAAGCTTTGCTCATCTTTAGAACCCATTCTTCGTAGAGTT
upper sequence: AT4G25800.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G01160.1 (Glycine max), 3'ss of exon 2
----gtgagtttctctgattttaaccagattgtttttgaaagtttcttagtattaaagactttt--tctggtcctattgctttttgt-----ctgcgcagTGTGATTGTTGAGGCTCTGAAAGTTGACAGTTTGCAGAAGCTTTGCTCGTCTTTGGAACCTATCCTCCGCCGAGTT
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aaagaagattttatttcttattaatcataatccatctacttgtttctaatttatatttattgttagtttcctataattgattgatacacatattttgcagTGTAATTGTGGAAGCTCTCAAGGTGGACAGTTTGCAGAAGCTTTGCTCATCTTTAGAACCCATTCTTCGTAGAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagtttcttagtattaaagactttttctggtcctattgctttttgtctgcgcagTGTGATTGTTGAGGCTCTGAAAGTTGACAGTTTGCAGAAGCTTTGCTCGTCTTTGGAACCTATCCTCCGCCGAGTT
ctttttgtct CT-rich tract
tattaaagacttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttctctgattttaaccagattgtttttgaaagtttcttagtattaaagactttttctggtcctattgctttttgtctgcgcagTGTGATTGTTGAGGCTCTGAAAGTTGACAGTTTGCAGAAGCTTTGCTCGTCTTTGGAACCTATCCTCCGCCGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC