Sequence
atgc intronic sequence ATGC exonic sequencegtaccaaaccctccaattgatttttttttttttttttttcgtgggttacaagttttagaactttttgtgttattgattttgcagAGCTTATGGTTTTGGGATTCATTTCTTTGTTATTAACATTTGGACAAAACTACATAGCAAGTTTGTGTGTGGCGTCAAGATACGGCCATGCGATGTCCTT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G33670.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G33670.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G01800.1 (Glycine max), 3'ss of exon 2
gt-accaaaccctccaattgat-----ttttttttttttttttttcgtgggttacaagttttagaactttttgtgttattgattttgcagAGCTTATGGTTTTGGGATTCATTTCTTTGTTATTAACATTTGGACAAAACTACATAGCAAGTTTGTGTGTGGCGTCAAGATACGGCCATGCGATGTCCTT
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gtgagcaacctcattaaaatatagtaatgtttttcttgttggtttgtttgttctcatgaataatgaattatttccttgttggcat-gcagAGCTTATGGTTTTGGGATTTATTTCCTTGCTCTTAACATTTGGTCAAAACTACATTTCTAAAATGTGTATTCCCGCGAAGTATGCACGCACAATGCTCCC
upper sequence: AT2G33670.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA04G01710.1 (Glycine max), 3'ss of exon 2
----------gtaccaaaccctccaattgattttttttttttttttttt-----cgtgggttacaagttttagaactttttgtgttattgattttgcagAGCTTATGGTTTTGGGATTCATTTCTTTGTTATTAACATTTGGACAAAACTACATAGCAAGTTTGTGTGTGGCGTCAAGATACGGCCATGCGATGTCCTT
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gtgagcaacctcattaatatatagtaatgtttttcttgttcgtttgtttgctcccatgaataatgaattatttccttcttgtttttgttggtat-gcagAGCTTATGGTTTTGGGATTTATTTCTTTGCTCTTAACATTTGGCCAAAATTACATTTCTAAAATGTGTATTCCCTCCAAGTATGCGAAAACAATGCTCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttttttcgtgggttacaagttttagaactttttgtgttattgattttgcagAGCTTATGGTTTTGGGATTCATTTCTTTGTTATTAACATTTGGACAAAACTACATAGCAAGTTTGTGTGTGGCGTCAAGATACGGCCATGCGATGTCCTT
tattgat putative branch site (score: 3)
ttttagaacttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccaaaccctccaattgatttttttttttttttttttcgtgggttacaagttttagaactttttgtgttattgattttgcagAGCTTATGGTTTTGGGATTCATTTCTTTGTTATTAACATTTGGACAAAACTACATAGCAAGTTTGTGTGTGGCGTCAAGATACGGCCATGCGATGTCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG