Sequence
atgc intronic sequence ATGC exonic sequencegtaagattgtgtgttaatggtttaagcttcttgttgggttggtgaagatgttaacatttgtgtctaattagGTTTCATGCTTTGGAGGAGTTTGATGAAGGGAAGAGAAGTTGTAGGAAACGTCTTGATGGACATAATCGAAGACGACGGAAGCCGCAGCCTGAACATATC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G50570.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G50570.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv17s0000g01260.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------gtaagattgtgtgttaatggtttaagcttcttgttgggttggtgaagat-gttaacatttgtgtctaat---tagGTTTCATGCTTTGGAGGAGTTTGATGAAGGGAAGAGAAGTTGTAGGAAACGTCTTGATGGACATAATCGAAGACGACGGAAGCCGCAGCCTGAACATATC
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atgagtttcttgtcctcctctgcattcactccttgtctgtttgtagcttga-ctttttacaggcctaaagtgcctcaatagtttctttgccttttgtatagGTTTCATTCGCTTGAGGAATTTGATGAGGGAAAGAGAAGCTGCAGGAAACGTCTTGATGGGCACAATAGACGGCGAAGAAAGCCTCAGCCGGAGCCCCTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|19877487|gb|AU238318.1|AU238318EST: GTGGTTACTATTAATGGTCATAAACAGAGGTTTTGTCAACAATGCAGCAG GTTTCATGCTTTGGAGGAGTTTGATGAAGGGAAGAGAAGTTGTAGGAAACG
genomic: GTGGTTACTATTAATGGTCATAAACAGAGGTTTTGTCAACAATGCAGCAGgtaagattgt ... gtctaattagGTTTCATGCTTTGGAGGAGTTTGATGAAGGGAAGAGAAGTTGTAGGAAACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggtttaagcttcttgttgggttggtgaagatgttaacatttgtgtctaattagGTTTCATGCTTTGGAGGAGTTTGATGAAGGGAAGAGAAGTTGTAGGAAACGTCTTGATGGACATAATCGAAGACGACGGAAGCCGCAGCCTGAACATATC
tgttaac putative branch site (score: 2)
ttaacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagattgtgtgttaatggtttaagcttcttgttgggttggtgaagatgttaacatttgtgtctaattagGTTTCATGCTTTGGAGGAGTTTGATGAAGGGAAGAGAAGTTGTAGGAAACGTCTTGATGGACATAATCGAAGACGACGGAAGCCGCAGCCTGAACATATC
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