Sequence
atgc intronic sequence ATGC exonic sequenceAGCTAAAGACAAGTTCCAGCAGCTGCAAAAAGTGATATCAATTCTTGGTGATGAAGAGAAAAGGGCAGTCTATGATCAAACTGGCTCAATTGATGATGCTgtgagtctctgtttttgttgtgtttgttcagtttgatcgagtgaagaaagcacttaacttcctcattagtattatgagattttcttaaacctgaggtgtttttccatgctcgttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G06910.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G06910.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os02g10220.1 (Oryza sativa), 5'ss of exon 3
AGCTAAAGACAAGTTCCAGCAGCTGCAAAAAGTGATATCAATTCTTGGTGATGAAGAGAAAAGGGCAGTCTATGATCAAACTGGCTCAATTGATGATGCTgtgagtctctgtttttgttgtgtttgttcagtttgatcgagtgaagaaagcacttaacttcctcattagtattatgagattttcttaaacctgaggtgtttttccatgctcgttag
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AGCCAAGGAGAAATTTCAGCAGCTTCAGAAGGTGATATCTATTCTTGGGGATGAGGAGAAAAGGGCATTATATGATGAGACTGGAATTGCTGATGATGATgtgagcacctgattccaagtagtgtgatt--tccaacctttcactcccagta---gattttctga--agttttgtc---ttttcctgtag--------------------------
upper sequence: AT5G06910.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G075485_T02 (Zea mays), 5'ss of exon 3
AGCTAAAGACAAGTTCCAGCAGCTGCAAAAAGTGATATCAATTCTTGGTGATGAAGAGAAAAGGGCAGTCTATGATCAAACTGGCTCAATTGATGATGCTgtgagtctctgtttttgttgtgtttgttcagtttgatcgagtgaagaaagcacttaacttcctcattagtattatgagattttcttaaacctgaggtgtttttccatgctcgttag
||| ||||| ||||| ||||||||||| || || ||||| |||||||| |||| ||||||||| || | |||||| | |||||| | |||||||| |||| | || ||| | | | || || | | | | || || | | || | | || | |||
AGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGAGATGTAGAGAAAAGAGCTTTATATGATGAGACTGGCATCACTGATGATGATgtgtgcacct-catttatagcactc---caattctacc---tttcagattcaagcaatatttttatgaatcttcctttttcatctag-----------------------------
upper sequence: AT5G06910.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G129987_T01 (Zea mays), 5'ss of exon 3
AGCTAAAGACAAGTTCCAGCAGCTGCAAAAAGTGATATCAATTCTTGGTGATGAAGAGAAAAGGGCAGTCTATGATCAAACTGGCTCAATTGATGATGCTgtgagtctctgtttttgttgtgtttgttcagtttgatcgagtgaagaaagcacttaacttcctcattagtattatgagattttctt-aaacctgaggtgtttttccatgctcgttag
||| ||||| ||||| ||||||||||| || || ||||| |||||||| |||| ||||||||| || | |||||| | |||||| | |||||||| |||| | || ||||| | | ||||| | | | |||| | || || || | || ||| || ||| | | || ||
AGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGAGATGCAGAGAAAAGAGCTTTATATGATGAGACTGGCATTACTGATGATGATgtgggcacct-catttgtagcactc---cagttctacct--ttaaga-----ttcaag-----caatatttttctgaatcttcctttacatcttag---------------------
upper sequence: AT5G06910.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G32480.1 (Glycine max), 5'ss of exon 3
AGCTAAAGACAAGTTCCAGCAGCTGCAAAAAGTGATATCAATTCTTGGTGATGAAGAGAAAAGGGCAGTCTATGATCAAACTGGCTCAATTGATGATGCTgtgagt--ctctgtttttgttgtgtttgttcagtt-----tgatcgagtgaagaaagcacttaacttcctcattagtattatgagattttcttaaacctgaggtgtttttccatgctcgttag
|||||| || || |||||||| ||||||||||||||||| ||||| || ||||||||||| | || |||||||||| ||||| | ||||||||||||||||| | || ||||| || | ||| ||| |||| | || | | | || ||| ||||||||| | | ||| | | ||
AGCTAAGGAGAAATTCCAGCAACTGCAAAAAGTGATATCGATTCTCGGGGATGAAGAGAAGCGAGCTCTCTATGATCAGACTGGTTGTGTTGATGATGCTgtgagtgccacttttttttttcttcatgtgttgttgctgatgattaggctttgattgga-taaatttctcaattagtatt-taactatttataggaaaagaa---------------------
upper sequence: AT5G06910.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0007g07960.t01 (Vitis vinifera), 5'ss of exon 3
AGCTAAAGACAAGTTCCAGCAGCTGCAAAAAGTGATATCAATTCTTGGTGATGAAGAGAAAAGGGCAGTCTATGATCAAACTGGCTCAATTGATGATGCTgtgagtctctgt-------ttttgttgtgtttgttcagtttgatcgagtgaagaaagcacttaacttcctcattagtattatgagattttcttaaacctgaggtgtttttccatgctcgttag---------------
||| || || || || ||||| || ||||| |||||||||||||||||||||||||||||||||||| |||||||||| ||||| | ||||||||||||| ||| | | ||||||| ||| ||||| ||| | | || |||| || | ||| || ||| | | || | | || |||| || | | | |
AGCCAAGGAAAAATTTCAGCAACTACAAAAGGTGATATCAATTCTTGGTGATGAAGAGAAAAGGGCACTCTATGATCAGACTGGTTGTGTTGATGATGCTgtaagtgaatatgaaaaccttttgttttgtatgttcttttttaatggcatttgagggcaca-aatgtgtccataagaattgatgatatctattgatcaggaagtgtgcatct-tatttctcaatttttttatgatcagMapped 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|19875304|gb|AU236135.1|AU236135EST: ATGAAGAGAAAAGGGCAGTCTATGATCAAACTGGCTCAATTGATGATGCT GATATTCCTGGAGATGCGTTTGAGAATTTGCGGGATTTCTTCCGGGACATG
genomic: ATGAAGAGAAAAGGGCAGTCTATGATCAAACTGGCTCAATTGATGATGCTgtgagtctct ... tgctcgttagGATATTCCTGGAGATGCGTTTGAGAATTTGCGGGATTTCTTCCGGGACATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCTAAAGACAAGTTCCAGCAGCTGCAAAAAGTGATATCAATTCTTGGTGATGAAGAGAAAAGGGCAGTCTATGATCAAACTGGCTCAATTGATGATGCTgtgagtctctgtttttgttgtgtttgttcagtttgatcgagtgaagaaagcacttaacttcctcattagtattatgagattttcttaaacctgaggtgtttttccatgctcgttag
- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA