Sequence
atgc intronic sequence ATGC exonic sequenceGTTGCCTCAATTAAGAGCTGCTGTTCTCCATAGCCCGATTCTTTCTGGTCTAAGAGTAATGTATCCAGTGAAGAAGACATACTGGTTCGACATCTTCAAGgtattaaatacatcattcttagatggatcattttcgattttcttgctttcctctatctttttcacagtgtccacttttaacaatatttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G14390.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G14390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G07280.1 (Glycine max), 5'ss of exon 3
GTTGCCTCAATTAAGAGCTGCTGTTCTCCATAGCCCGATTCTTTCTGGTCTAAGAGTAATGTATCCAGTGAAGAAGACATACTGGTTCGACATCTTCAAGgtattaaatacatcattcttagatggatcattttcgattttcttgctttcctctatctttttcacagtgtccacttttaacaatatttgcag
|||||||||||||||||||| |||||| || || || || |||||||| |||| || ||||||||||| ||| ||||||||||| ||||| | |||||| || ||| || ||| | | || | || || || |||| | | || || | |||| ||||
GTTGCCTCAATTAAGAGCTGTTGTTCTGCACAGTCCCATACTTTCTGGCTTAAGGGTCATGTATCCAGTAAAGCGTACATACTGGTTTGACATATATAAGgtagtatatatgctgttttta------tttctcatcatatatgtgaatttcttaatctaat--aagatgctgctttgtgttgatat--gcag
upper sequence: AT5G14390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv14s0219g00290.t01 (Vitis vinifera), 5'ss of exon 3
GTTGCCTCAATTAAGAGCTGCTGTTCTCCATAGCCCGATTCTTTCTGGTCTAAGAGTAATGTATCCAGTGAAGAAGACATACTGGTTCGACATCTTCAAGgtattaaatacatcattcttagatggatcattttcgattttcttgctttcctctatctttt------tcacagtgtccacttttaacaatatttgcag------------------------
| ||||||| |||||||||| |||| | ||||| || || ||||| ||| ||||||| |||||||| || ||| ||||||||||| ||||| | ||||||| | || || ||| || | ||| || | | | | ||| || | | | | | |||| | ||| |
GCTGCCTCAGTTAAGAGCTGTTGTTTTGCATAGTCCTATACTTTCAGGTTTAAGAGTTATGTATCCTGTAAAGCGAACATACTGGTTTGACATTTATAAGgtatcttcttcaaaatatctagc---attactttatatatatatatatatatatattaattgaaaaataattgcatttattttttatggaattgagtgctggtttctgttgattgtgtgcag
upper sequence: AT5G14390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ19908 (Selaginella moellendorffii), 5'ss of exon 3
GTTGCCTCAATTAAGAGCTGCTGTTCTCCATAGCCCGATTCTTTCTGGTCTAAGAGTAATGTATCCAGTGAAGAAGACATACTGGTTCGACATCTTCAAGgtattaaatacatcattcttagatggatcattttcgattttcttgctttcctctatctttttcacagtgtccacttttaacaatatttgcag
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ACTGCCAAGGCTCCGGGCTGTAGTTCTTCACAGCCCGATTCTATCTGGACTGCGAGTAATGTATCCCGTGAAGCGCACGTACTGGTTTGACATCTACAAGgtactttgttgttttctctt---ttcacttttcccagcacgcaagctccgctc-actgctttttttgttttcgcgcag--------------Mapped 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|124830520|gb|EH914966.1|EH914966EST: AAGAGTAATGTATCCAGTGAAGAAGACATACTGGTTACGACATCTTCAAG AATATCGACAAAATAC
genomic: AAGAGTAATGTATCCAGTGAAGAAGACATACTGGTT-CGACATCTTCAAGgtattaaata ... atatttgcagAATATCGACAAAATAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGCCTCAATTAAGAGCTGCTGTTCTCCATAGCCCGATTCTTTCTGGTCTAAGAGTAATGTATCCAGTGAAGAAGACATACTGGTTCGACATCTTCAAGgtattaaatacatcattcttagatggatcattttcgattttcttgctttcctctatctttttcacagtgtccacttttaacaatatttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG