Sequence
atgc intronic sequence ATGC exonic sequenceGTTCATGTGGTTACAGTTAATGATTATCTTGCTCGAAGAGATTGTGAATGGGTTGGTCAAGTTCCTCGGTTCCTTGGATTGAAGGTTGGTCTAATCCAACgtatgtctcttttctctgaacttctttgtcaatgtaatcagcatcttctttgctcgttgtgtgttatagatgctttacgcatgtggttactttgacag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G01800.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g21820.1 (Oryza sativa), 5'ss of exon 2
GTTCATGTGGTTACAGTTAATGATTATCTTGCTCGAAGAGATTGTGAATGGGTTGGTCAAGTTCCTCGGTTCCTTGGATTGAAGGTTGGTCTAATCCAACgtatgtctcttttctctgaacttctttgtcaatgtaatcagcatcttct--ttgctcgttgtgtgttatagatgctttacgcatgtggttactttgacag
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GTGCATGTTGTAACTGTAAATGATTATCTTGCAAGACGTGATTGCGAATGGGTTGGTCAGGTTCCCCGATTTCTAGGACTGCAGGTTGGCCTAATTCAACgtatgtcatcaaatcgttttgttcattgttgttttttttgccatctcctaattaaaaattttgttcaatgtccggctcaaaacttcaaatatgattaagt
upper sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G27810.1 (Glycine max), 5'ss of exon 3
GTTCATGTGGTTACAGTTAATGATTATCTTGCTCGAAGAGATTGTGAATGGGTTGGTCAAGTTCCTCGGTTCCTTGGATTGAAGGTTGGTCTAATCCAACgtatgtctcttttctctgaacttctttgtcaatgtaatcagcatcttct-ttgctcgttgtgtgttatagatgctttacgca--tgtggttactttgacag
|||||||| ||||| || ||||||||||| ||||| || |||||||| ||||||||||| |||||||| || ||||||||||||||||| || || || |||||||||| | || |||||| | || | || |||| || || | ||| || | | || || || |||| || |
GTTCATGTTGTTACTGTCAATGATTATCTGGCTCGGAGGGATTGTGAGTGGGTTGGTCAGGTTCCTCGCTTTCTTGGATTGAAGGTTGGCCTCATTCAGCgtatgtctcataattcattacttctctctcctctttatgtatggattctgtttctacatctgtattcctgcatcgttggtcagttggggttggttgtatt-
upper sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G01060.3 (Glycine max), 5'ss of exon 3
GTTCATGTGGTTACAGTTAATGATTATCTTGCTCGAAGAGATTGTGAATGGGTTGGTCAAGTTCCTCGGTTCCTTGGATTGAAGGTTGGTCTAATCCAACgtatgtctcttttctctgaacttctttgtcaatgtaat--cagcatcttctttgctcgt-tgtgtgttatagatgctttacgcatgtggttactttgacag
|||||||| || || || ||||||||||| ||||| || |||||||| ||||||||||| |||||||| || ||||||||||||||||| || || || |||||||||| | || ||||| | || | || | || | ||| | | ||| | || | | || |||| || |
GTTCATGTTGTAACTGTCAATGATTATCTAGCTCGGAGGGATTGTGAGTGGGTTGGTCAGGTTCCTCGCTTTCTTGGATTGAAGGTTGGCCTCATTCAGCgtatgtctcatacttcattacttccctctcctctttatgtttggattctgtttctacatctgtattcatccattgttagtcagttggggttggttgtatt-
upper sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv07s0005g02610.t01 (Vitis vinifera), 5'ss of exon 3
GTTCATGTGGTTACAGTTAATGATTATCTTGCTCGAAGAGATTGTGAATGGGTTGGTCAAGTTCCTCGGTTCCTTGGATTGAAGGTTGGTCTAATCCAACgtatgtctcttttctctga-acttctttgtcaatgtaatcagcatcttctttgctcgttgtgtgttatagatgctttacgcatgtggttactttgacag---
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GTTCATGTTGTTACTGTCAATGATTATCTGGCCCGGCGAGATTGTGAATGGGTTGGTCAAGTTCCTCGATTTCTTGGACTGCAGGTTGGCCTAATCCAACgtatgtctcagtcttttgttatttgttccactcctgcattggtattccttttgcttgtatttgg--atggaatatgaatgcatgcatttccaaccatgtggaMapped 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|125002989|gb|EL075258.1|EL075258EST: GGTTGGTCAAGTTCCTCGGTTCCTTGGATTGAAGGTTGGTCTAATCCAAC AGAATATGACACCTGAACAAA
genomic: GGTTGGTCAAGTTCCTCGGTTCCTTGGATTGAAGGTTGGTCTAATCCAACgtatgtctct ... actttgacagAGAATATGACACCTGAACAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTCATGTGGTTACAGTTAATGATTATCTTGCTCGAAGAGATTGTGAATGGGTTGGTCAAGTTCCTCGGTTCCTTGGATTGAAGGTTGGTCTAATCCAACgtatgtctcttttctctgaacttctttgtcaatgtaatcagcatcttctttgctcgttgtgtgttatagatgctttacgcatgtggttactttgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG