Sequence
atgc intronic sequence ATGC exonic sequenceAGGTTTTGAAGTTAGTTACTTGAACATTGGTGGTGGTTTAGGGATTGATTATTACCATGCCGGCGCTGTCCTTCCCACACCCATGGATCTCATCAACACTgtaagaacaacatctctttcgttcatttgatctcaaaagtagtgggatggtagaattgttacaatccttgatgtgttccag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14390.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14390.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G090722_T02 (Zea mays), 5'ss of exon 4
AGGTTTTGAAGTTAGTTACTTGAACATTGGTGGTGGTTTAGGGATTGATTATTACCATGCCGGCGCTGTCCTTCCCACACCCATGGATCTCATCAACACTgtaagaacaacatctctttcgttcatttgatc-------tcaaaagta---gtgggatggtagaattgttacaatccttgatgtgttccag-------------------------------------------------------------
||||||| | | ||| |||| ||||| |||||||| || || ||||| | ||| ||| || ||| | || ||||| ||||||||||||||||||||||| || ||| | | | | |||| | | | | || || ||| | ||||| |||| | | |
AGGTTTTAAGTTGGAGTACCTGAATATTGGAGGTGGTTTGGGAATAGATTACCATCATACCGATGCAGTCTTACCTACACCTATGGATCTCATCAACACTgtaagctcagcattcttaccatgtttctgattcatatctttgcaggcacacatgcatctttaaaatagcagttctccttattgtgatacggtaagttagcttatgcaattatggcttgattcatcatggtggttctatttattttgttgcag
upper sequence: AT3G14390.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G020446_T01 (Zea mays), 5'ss of exon 4
AGGTTTTGAAGTTAGTTACTTGAACATTGGTGGTGGTTTAGGGATTGATTATTACCATGCCGGCGCTGTCCTTCCCACACCCATGGATCTCATCAACACTgtaagaacaacatctctttcgttcatttgatctcaaaagtagtgggatggta-gaattgttacaat---------ccttgatgtgttccag---------------------------------------------------------
||||||| | | ||| |||| || || |||||||| || || ||||| | ||| ||| || ||| | || ||||| ||||||||||||||||||||||| |||||| | | | | ||| | | | || | | || ||| ||| |||| ||||| | |
AGGTTTTAAGTTGGAGTACCTGAATATCGGAGGTGGTTTGGGAATAGATTACCATCATACCGATGCAGTCTTACCTACACCTATGGATCTCATCAACACTgtaagctcaacattcttaccatgtttctgactcatatctttgcaggcgcacatgcatctttaaaataccagttttccttaatgtgatatggaaagttggcttatgctgagcttgattcatcatgcttgttctatttattttgttgcag
upper sequence: AT3G14390.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G06090.2 (Glycine max), 5'ss of exon 6
--AGGTTTTGAAGTTAGTTACTTGAACATTGGTGGTGGTTTAGGGATTGATTATTACCATGCCGGCGCTGTCCTTCCCACACCCATGGATCTCATCAACACTgtaagaacaacatctctttcgttcatttgatctcaaaagtagtgggatggtagaattg--ttacaatccttgatgtgttccag------------------
|||||| ||||| |||||| || ||||||||||| | ||||| |||||| | ||| |||| ||||||||||| ||||||| |||||||| ||| || || || | ||| || | | || | || | | ||| | | | || |||||| | || | ||
CAGGGTTTTCAAGTTGATTACTTAAATATTGGTGGTGGACTTGGGATAGATTATCAACATTCCGGTGCTGTCCTTCCTACACCCAGAGATCTCATTGACA-
upper sequence: AT3G14390.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G20390.1 (Glycine max), 5'ss of exon 5
AGGTTTTGAAGTTAGTTACTTGAACATTGGTGGTGGTTTAGGGATTGATTATTACCATGCCGGCGCTGTCCTTCCCACACCCATGGATCTCATCAACACTgtaagaacaacatctctttcgt-tcatttgatct---caaaagtagtgggatggtagaattg---ttacaatccttgatgtgttccag-------------
|||||||||||| ||| || || ||||||||||| | ||||| |||||| | ||| | || ||||||||||| ||||||| |||||||| ||||||| || || | ||| | ||| || |||| || || | | ||| | ||| || ||||| || || | ||
GGGTTTTGAAGTTGATTATTTAAATATTGGTGGTGGACTTGGGATAGATTATCAACATTCTGGTGCTGTCCTTCCTACACCCAGAGATCTCATTGACACTgtgaggacttgacctcagatatctcactttatcttcccataatttatttgatttatgtattaagtttgcaatcttt-ataagaataaggaatcactattggMapped 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|125185886|gb|EL200840.1|EL200840EST: ATTACCATGCCGGCGCTGTCCTTCCCACACCCATGGATCTCATCAACACT GTAAGAGAGCTTGTTCTTT
genomic: ATTACCATGCCGGCGCTGTCCTTCCCACACCCATGGATCTCATCAACACTgtaagaacaa ... tgtgttccagGTAAGAGAGCTTGTTCTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGTTTTGAAGTTAGTTACTTGAACATTGGTGGTGGTTTAGGGATTGATTATTACCATGCCGGCGCTGTCCTTCCCACACCCATGGATCTCATCAACACTgtaagaacaacatctctttcgttcatttgatctcaaaagtagtgggatggtagaattgttacaatccttgatgtgttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA