Sequence
atgc intronic sequence ATGC exonic sequenceCTTGGTACACCGGTTTTCGATAAACTTGAAGCAGAACTGGCAAAAGCTTGTATGTCGCTACCTGCAACTAAGGGATTTGAGTTTGGAAGCGGCTTTGCAGgtatagaaagttatacttttctctcctttgtccaatctaaaatcaacctcctttggagctgtataaatcatacgcaaatgaacccgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G48850.3 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G48850.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA10G35560.1 (Glycine max), 5'ss of exon 9
CTTGGTACACCGGTTTTCGATAAACTTGAAGCAGAACTGGCAAAAGCTTGTATGTCGCTACCTGCAACTAAGGGATTTGAGTTTGGAAGCGGCTTTGCAGgtatagaaa----gttatacttttctct-----cctttgtccaatctaaaatcaacctcctttggagctgtataaatcatacgcaaatgaacccgcag------------------------------------------------
|| ||| |||| || || || ||||||||||| ||||| || |||||| |||||| | |||||||| ||||| ||| ||||||| || || |||||||||| ||| |||| | | || || ||||| || | || || || || | || ||| || | |
CTCGGTTCACCAGTATTTGACAAACTTGAAGCTGAACTAGCTAAAGCTGCTATGTCATTGCCTGCAACCAAGGGCTTTCAGTTTGGTAGTGGGTTTGCAGgtactaaaacttgcttatgtatatgtccgagtgcccttgtcttat--gatattggccgactaaacag--ggatcaattgaacaatgttattttcttgatcacttgtgtctgaagtgtgttctaatggcttagtgaaattattatag
upper sequence: AT1G48850.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv06s0004g02960.t01 (Vitis vinifera), 5'ss of exon 9
CTTGGTACACCGGTTTTCGATAAACTTGAAGCAGAACTGGCAAAAGCTTGTATGTCGCTACCTGCAACTAAGGGATTTGAGTTTGGAAGCGGCTTTGCAGgtatagaaagttatacttttctctcctttgtccaatcta-----aaatcaacctcctttggagctgtataaatcatacgcaaatgaacccgcag----------------------
|||||| |||| |||||| ||||||||||||| ||||||| | |||| ||||| || |||||| | | || ||||||||||| || |||||||||||||| ||| | | | | | ||| || | | ||| || | || |||| || | | ||| | |
CTTGGTTCACCAGTTTTCAATAAACTTGAAGCTCAACTGGCCAGAGCTGCCATGTCACTGCCTGCATCGATAGGCTTTGAGTTTGGCAGTGGCTTTGCAGgtatggaattggtttgtcgtatttgttttaaaaaacccaccaaaaaaaaaaagttctaaggagaacaatgatacttacttttccaagcttctgattgtcattgagaatccttgcag
upper sequence: AT1G48850.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv13s0019g04190.t01 (Vitis vinifera), 5'ss of exon 9
CTTGGTACACCGGTTTTCGATAAACTTGAAGCAGAACTGGCAAAAGCTTGTATGTCGCTACCTGCAACTAAGGGATTTGAGTTTGGAAGCGGCTTTGCAGgtatagaaagtt---atacttttctctcctttgtccaatctaaaatc--aacctcctttgga--gctgtataaatcatacgcaaatgaacccgcag----------------------------------------------------------------------------
||||| |||| || || |||||||||||||| || |||| |||||| | |||| |||||||||| ||||| ||||| ||||| || || |||||||||| ||||| || | ||||| | | | | | | ||| | || | |||| || || || || | || || | |
CTTGGATCACCAGTCTTTGATAAACTTGAAGCTGAGTTGGCTAAAGCTGCTTTGTCATTACCTGCAACAAAGGGCTTTGAATTTGGCAGTGGTTTTGCAGgtagagaaacttttggtgctttttggttatattttcctccaaaattttaaatttggggtggataactagattgattatttg-aattgcaattatatgcatcttatgttgtcattcttccttgatattatttctttgttatttccaactatttatcattggaagttcctgcagMapped 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|125230913|gb|EL244998.1|EL244998EST: TATGTCGCTACCTGCAACTAAGGGATTTGAGTTTGGAAGCGGCTTTGCAG GTACCTTTTTGACTGGTCTTG
genomic: TATGTCGCTACCTGCAACTAAGGGATTTGAGTTTGGAAGCGGCTTTGCAGgtatagaaag ... gaacccgcagGTACCTTTTTGACTGGTCTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTGGTACACCGGTTTTCGATAAACTTGAAGCAGAACTGGCAAAAGCTTGTATGTCGCTACCTGCAACTAAGGGATTTGAGTTTGGAAGCGGCTTTGCAGgtatagaaagttatacttttctctcctttgtccaatctaaaatcaacctcctttggagctgtataaatcatacgcaaatgaacccgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG