Sequence
atgc intronic sequence ATGC exonic sequencegtaatcagaatctgagtttgttattgagatcagaatctgagctttgtttaatatgactgaatcatttgataatcgtcttttcagTGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAGATGAAGACTATAAGCATATGCTTTGTGTGGAAGCTGCGGCTATCGAGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G57330.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G57330.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G06380.1 (Glycine max), 3'ss of exon 7
----gtaatcagaatctgagtttgtta--ttgagatcagaatctgagc-----tttgtttaatatgactg-aat---catttgataatcg-tcttttcagTGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAGATGAAGACTATAAGCATATGCTTTGTGTGGAAGCTGCGGCTATCGAGAG
| || | ||| | || | | | | || | || || |||||| | ||| ||||| || | ||| | ||||||||||||||||||||||||||||| ||||| | || |||| || || ||||| || || ||||||||||||||||| || ||||| ||||| || |
gccctttattacaattgagttgtgacacctctaagttcacatttaagtgactgcctgcctaatatttttttaattaacatttactatttaatctgtgcagTGGTGTGGAATCCTTGGGATAAGAAAGCAAAGGCCATGGCTGATTTTGGTGATGATGAGTACAAGCATATGCTTTGTGTAGAGGCTGCTGCTATTGAAAA
upper sequence: AT5G57330.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G06880.1 (Glycine max), 3'ss of exon 7
-gtaatcagaatctgagtttgttattgagatcagaatctgagctttgttt------aatatga--------ctgaatcatttgataatc-gtcttttcagTGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAGATGAAGACTATAAGCATATGCTTTGTGTGGAAGCTGCGGCTATCGAGAG
||| | |||| | ||| | | | || || | | ||| | || | || |||||| || | ||| | ||||||||||||||||||||||||||||| ||||| | || ||||| || || ||||| || |||||| | ||||||||||| || ||||| ||||| || |
tttaagaaacatcttgagtagttggtatatttaacatttgtgttgcttttggattggacataaaactttttctttctcatttattattttatctgtgcagTGGTGTGGAATCCTTGGGATAAGAAAGCAAAGGCTATATCTGATTTCGGTGATGATGAGTATAAGTACATGCTTTGTGTAGAGGCTGCTGCTATTGAAAA
upper sequence: AT5G57330.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G00780.1 (Glycine max), 3'ss of exon 7
----gtaatcagaatctgagttt--gttattgagat---cagaatctgag---ctttgttta---atatgactgaatcatttgataatc-gtcttttcagTGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAGATGAAGACTATAAGCATATGCTTTGTGTGGAAGCTGCGGCTATCGAGAG
| | | | || || || || ||| | || || | ||| | || | | | |||||| | | ||| | |||||||||||||||||||||| |||||| ||||| | || ||||| || || ||||| || |||||| | ||||||||||| || ||||| ||||| || |
ttccaaatttaagaaacgatcttgagtagatgggatatttaatatttgtgtctcttggattggacacttttttttctcatttattgttttatctctgcagTGGTGTGGAATCCTTGGGACAAGAAAGCAAAGGCTATGTCTGATTTTGGTGATGATGAGTATAAGTACATGCTTTGTGTAGAGGCTGCTGCTATTGAAAA
upper sequence: AT5G57330.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G17630.1 (Glycine max), 3'ss of exon 7
----gtaatcagaatctgagtttgtta--ttgagatcagaatctgag---ct--ttgtttaatatgact--gaat---catttgataatcgtcttttcagTGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAGATGAAGACTATAAGCATATGCTTTGTGTGGAAGCTGCGGCTATCGAGAG
| |||| ||| | || | | | | || | || || || |||||| | ||| ||||| || | ||| | ||||||||||||||||||||||||||||| ||||| | | |||| || || ||||| || || ||||||||||||||||| || || || ||||| || |
gccctttatcaaaattgagttgtgacacctctaagttcacatttaagagactggctgcctaatattttttttaattaacatttattattaatctgtgcagTGGTGTGGAATCCTTGGGATAAGAAAGCAAAGGCCCTGGCTGATTTTGGCGATGATGAGTACAAGCATATGCTTTGTGTAGAGGCCGCTGCTATTGAAAAMapped 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|86081208|gb|DR376965.1|DR376965EST: CGAGAAAAAGAGGACTTTCGTTATTCGCAAGGACGGGCTTGCTGATGCTG TGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAG
genomic: CGAGAAAAAGAGGACTTTCGTTATTCGCAAGGACGGGCTTGCTGATGCTGgtaatcagaa ... gtcttttcagTGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAG
EST:
gi|86077080|gb|DR372837.1|DR372837EST: CGAGAAAAAGAGGACTTTCGTTATTCGCAAGGACGGGCTTGCTGATGCTG TGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAG
genomic: CGAGAAAAAGAGGACTTTCGTTATTCGCAAGGACGGGCTTGCTGATGCTGgtaatcagaa ... gtcttttcagTGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagaatctgagctttgtttaatatgactgaatcatttgataatcgtcttttcagTGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAGATGAAGACTATAAGCATATGCTTTGTGTGGAAGCTGCGGCTATCGAGAG
tcgtcttttc CT-rich tract
tttgtttaatatga TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcagaatctgagtttgttattgagatcagaatctgagctttgtttaatatgactgaatcatttgataatcgtcttttcagTGGTGTGGAATCCTTGGGATAAGAAATCAAAGACGATCTCTGACTTGGGAGATGAAGACTATAAGCATATGCTTTGTGTGGAAGCTGCGGCTATCGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC