Sequence
atgc intronic sequence ATGC exonic sequenceCGAAGAAAACGGTACTGCTCCTGTTAAACCTGGTACTGGTCTTACGGTTGCAGTCAAAACCTTAAATCCTGATGGACTTCAAGGTCACAAAGAATGGCTTgtaagagacacttcttcttctgtttcttttgatttgatcacttgttgttttctgaatgtgttcctgcttgttgcaattgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G15080.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G15080.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 5'ss of exon 2
CGAAGAAAACGGTACTGCTCCTGTTAAACCTGGTACTGGTCTTACGGTTGCAGTCAAAACCTTAAATCCTGATGGACTTCAAGGTCACAAAGAATGGCTTgtaagagacac-ttcttctt-ctgtttcttttgatttgatcacttgttgttttctgaatgtgttcctgcttg---ttgcaattgcag-----------------------
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TGAAGAGAATGGAACTGCACCTATGAAACCTGGTACAGGCCTTACAGTTGCTGTCAAAACACTCAATCATGATGGGCTTCAAGGGCACAAAGAATGGGTGgtatgtgctttgttattcttattgttcaaattgcttttgttcc--gttcatgtttggtaccattcccattagaacccccaatgactgacatttgttctgcttcgtttcag
upper sequence: AT5G15080.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G150806_T01 (Zea mays), 5'ss of exon 2
CGAAGAAAACGGTACTGCTCCTGTTAAACCTGGTACTGGTCTTACGGTTGCAGTCAAAACCTTAAATCCTGATGGACTTCAAGGTCACAAAGAATGGCTTgtaagagacacttcttctt---ctgtttc----ttttgatttgatcacttgttgttttctgaatgtgttcctgcttgttgcaattgcag-------------------------
|||||| ||||| ||||| || || ||||||||||| ||||| |||||||| ||||| || |||| | ||| || |||||||| || ||||||||| | ||| | | | | | || || ||| || || |||| | | |||| | | ||| || | | ||| |
CGAAGAGAACGGAACTGCACCCGTGAAACCTGGTACAGGTCTCACGGTTGCTGTCAAGACACTAAACCATGACGGGCTTCAAGGGCATAAAGAATGGGTGgtatgtgctatgtttgttttacctatttgcaagttcacatatgatgtttacatatttttggtgtcaattcttgatggctgcgtctcatactctgttttaattgatcttttccag
upper sequence: AT5G15080.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA09G37580.1 (Glycine max), 5'ss of exon 2
CGAAGAAAACGGTACTGCTCCTGTTAAACCTGGTACTGGTCTTACGGTTGCAGTCAAAACCTTAAATCCTGATGGACTTCAAGGTCACAAAGAATGGCTTgtaagagac--acttcttcttctgtttcttttgatttgatcacttgttgttttctgaatgtgttcctgcttgttgcaattgcag--------------------
|| ||||| || ||||| ||||| |||||||||||||| ||||| ||||||||||| ||| | || | ||||||||| || ||||||||||| ||||||||| || || || | | ||||| | || || || | | ||| | | || | | ||||| |
TGAGGAAAATGGAACTGCACCTGTGAAACCTGGTACTGGGCTTACTGTTGCAGTCAAGACCCTCAACCATGATGGACTGCAGGGTCACAAAGAGTGGCTTgtatgaaacttacatatccttcttatcaacttttttccttctatgaatttttcttttacagtttttctttcttaacaatttcccttttttttctcccttctcag
upper sequence: AT5G15080.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA18G49060.1 (Glycine max), 5'ss of exon 2
-CGAAGAAAACGGTACTGCTCCTGTTAAACCTGGTACTGGTCTTACGGTTGCAGTCAAAACCTTAAATCCTGATGGACTTCAAGGTCACAAAGAATGGCTTgtaagagacacttct-tcttctgtttcttttgatttgatcacttgttgttttctgaatgtgttcctgcttgttgcaattgcag---------------------
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TTGAGGAAAATGGAACTGCACCTGTGAAACCTGGCACTGGGCTTACTGTTGCAGTCAAGACCCTTAACCATGATGGACTGCAGGGTCACAAAGAGTGGCTtgtatgaaacttatatatccttcatctcaagttttttccttctatgaatttttcttttataatttttctttgttaacattttcccttttcttctctcccatctcaMapped 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|124787952|gb|EH877631.1|EH877631EST: TCACAAAGAATGGCTT GCTGAGATTAATTTCCTTGGTAACCTTCTCCATCCAAATCTAGTTAAGCTT
genomic: TCACAAAGAATGGCTTgtaagagaca ... gcaattgcagGCTGAGATTAATTTCCTTGGTAACCTTCTCCATCCAAATCTAGTTAAGCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGAAGAAAACGGTACTGCTCCTGTTAAACCTGGTACTGGTCTTACGGTTGCAGTCAAAACCTTAAATCCTGATGGACTTCAAGGTCACAAAGAATGGCTTgtaagagacacttcttcttctgtttcttttgatttgatcacttgttgttttctgaatgtgttcctgcttgttgcaattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA