Sequence
atgc intronic sequence ATGC exonic sequenceTATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAGgtatttttctcttatgtatgttagatacagtcatccatatgtttgttaccgaccacttcattgaatatgttatttatgccattggaagctgcatgaatcc...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G07160.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G38860.1 (Glycine max), 5'ss of exon 2
TATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAGgtatttttctcttatgta-tgttagatacagtcatccatatgttt--gttaccgaccacttcattgaatatgttatttatgccattggaagctgcatgaatcc
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TATGTGAGCATGCATATTCATTATCTCAAAATTTGGATCCTAACAGTGAAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAGgtagaaatttattgtctacttttatgtaaaataaaagttgtgctcaggatacttgacatgtgcataccggtatgttttgatttgtctgtgactttgtggt---
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G44150.1 (Glycine max), 5'ss of exon 2
TATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAGgtat----------ttttctcttatgtatgttagatacagtcatccatatgtttgt----taccgaccact-tcattgaatatgttatttatgccattggaagctgcatgaatcc
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TATGTGAGCATGCATATTCATTATCTCAAAATTTGGACCCCAACAGTGAAGGCCGAGGTGTTTTGCAATTCAAGACTGGTTTGATGTCTGTCATCAAGgtataaatttagagtctacttttatgtaagataaaaattgtgctcgggatatttgacttgtgcatactggtatcagtgg-tatgtt-tttatttgtttgtga-------------
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 5'ss of exon 3
TATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAGgtatttttctcttatgt---atgttagatacagtcatccatatgtttgttaccgaccacttcattgaatatgttatttatgccattggaagctgcatgaatcc
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TATGTGAGCATGCTTATTCATTGTCTCAAAATCTGGATCCTAATAGTGAGGGAAGAGGTGTATTACAGTTCAAGACTGGTTTAATGTCTGTAATCAAGgtattccctgcattgatgaaatggtgaattttgttttttgcatcctt-taaaaacacatggtctgcattatttcacataaaagatggcatttattatgtgc--
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S67_234V6.1 (Physcomitrella patens), 5'ss of exon 2
TATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAGgtatttttctcttatgtatgttagatacagtcatccatatgtttgttac-cgaccacttcattgaatatgttatttatgccattggaagct-gcatgaatcc----------------------------------------------------------
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TGTGCGAGTACGCGTACACGCTGGCACAAGATCTGGATCCGAATAGTGAAGGCAGAGGCGTTTTGCAATTCAAGACGGGTTTGTTGTCCGTCATTAAGgtgctctttgacctaaaactttaagctcatattaccaggggatagatactccatgatcacatcctgttttctctcaatccaacttcattcttataaggttctggtgcatctaggctgatgaacatacttcctggttttatggaatatgtgttcgctgcag
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S18_300V6.1 (Physcomitrella patens), 5'ss of exon 2
--TATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAGgtatttttctcttatgtatgttagatacag-tcatcca---tatgtttgttaccgac-cacttcattgaata-tgttatttatgccattggaagctgcatgaatcc-----------------------------
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AGTGTGTGAGCATGCGTATACTCTAGTGCAGAACTTGGATCCATATAGTGAAGGCAGAGGTGTATTGCAGTTCAAGACGGGTTTGCTGTCCGTCATCAAGgtatttctaagcacagtctataagctggagctcatttagaatacgaacttctttagcgcatcctgttcaatcctgctgcatg-accaatgta--ttgcatgattgatgtgtaatggaggagcatgactgttgcagMapped 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|116421624|gb|EG464216.1|EG464216EST: GTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAG CAAAAATTAGCAAAAAGAGAGGTTGGGACCATAGACAGAAGTCAGGATATT
genomic: GTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAGgtatttttct ... ttaattgtagCAAAAATTAGCAAAAAGAGAGGTTGGGACCATAGACAGAAGTCAGGATATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAGgtatttttctcttatgtatgttagatacagtcatccatatgtttgttaccgaccacttcattgaatatgttatttatgccattggaagctgcatgaatcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttctctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agatacag