Sequence
atgc intronic sequence ATGC exonic sequenceATACTTTCTACTGGACTTGGTAGGATAGTGCCAAACTTGATATCGAGGAAGCACACCAATAGTGCTGCTACAGgtatgtagttctctcatatggtgtgagtgtgacattgccaatactatagttttgggtttttaaagaatttgctagcttaaatgaattgagagtgctatgc...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G36290.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G36290.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os11g28300.1 (Oryza sativa), 5'ss of exon 5
ATACTTTCTACTGGACTTGGTAGGATAGTGCCAAACTTGATATCGAGGAAGCACACCAATAGTGCTGCTACAGgtatgtagttctctcatatggtgtg------agtgtg-acattgccaatactatagttttgggtttttaaagaatttgctagcttaaatgaattgagagtgctatgc
|||| || |||||||||||||||||||| || ||||||||||| ||||||||||| || |||||||||||||||| || || ||| | | ||| | |||| | | | | || ||||| | |||| | | | | | | | | || | |
GTACTATCAACTGGACTTGGTAGGATAGTCCCCAACTTGATATCAAGGAAGCACACTAACAGTGCTGCTACAGgtactta-ttttcttacttagtgagtttccaggtgtttgcttcgggagtatgctagttcatgcttttcatatctgtagttgtcatgctggcatgctggcag------
upper sequence: AT5G36290.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G151863_T01 (Zea mays), 5'ss of exon 5
ATACTTTCTACTGGACTTGGTAGGATAGTGCCAAACTTGATATCGAGGAAGCACACCAATAGTGCTGCTACAGgtatgtagttctctcatatggtgtgagtgtgacattgccaatactatagttttgggtttttaaagaat-ttgctagcttaaatgaattgagagtgctatgc-----
|| | || ||||||||||| || |||||||| ||||||||||| ||||||||||| ||||||||||||||||||| || | ||| || || ||| ||| || || || | | | || | || ||||| ||| || ||| || ||
GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAGgtactta-tgttcttttagcgt-tgaatgt----ttttcatatcttcatgctgacactcatattgtatattgctgatgtaagcattatgcaagttctgtgttatcc
upper sequence: AT5G36290.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA18G47670.1 (Glycine max), 5'ss of exon 5
ATACTTTCTACTGGACTTGGTAGGATAGTGCCAAACTTGATATCGAGGAAGCACACCAATAGTGCTGCTACAGgtatgtagttctctcatatggtgtgagtgt---gacattgcca-atactatagttttgggtttttaaagaatttgctagcttaaatgaattgagagtgctatgc
|||||||||| || ||||| ||||| |||||||| ||||| || |||||||| || ||||||||||||||||||| | || | || | | | || | ||| |||| ||| | |||| | || || | | ||| | | | | || |
GTACTTTCTACAGGGCTTGGCAGGATTGTGCCAAATTTGATTTCTAGGAAGCATACGAATAGTGCTGCTACAGgtac--aatttctgggtttgatacttatttctgagcagatttacatattataatttgtgaattttgcaaaaaa-gcaggttaaaaagtaattattttgaatta-
upper sequence: AT5G36290.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA09G38640.1 (Glycine max), 5'ss of exon 5
ATACTTTCTACTGGACTTGGTAGGATAGTGCCAAACTTGATATCGAGGAAGCACACCAATAGTGCTGCTACAGgtatgtagttc---tctcatatggtgtgagtgtgacattgccaatactatagttttgggtttttaaagaatttgctagcttaaatgaattgagagtgctatgc
|||||||||| || ||||| ||||| ||||| || ||||| || |||||||| || ||||||||||||||||||| | | | ||| | | || | | ||| |||| ||| | |||| | || || | | ||| | | | | || |
GTACTTTCTACAGGGCTTGGCAGGATTGTGCCTAATTTGATTTCTAGGAAGCATACAAATAGTGCTGCTACAGgtacaatttctgggtttgatact-tattgctgagcagatttacatattataatttgtgaattttgcaaaaaa-gcaggttaaaaagtaattattttgaatta-
upper sequence: AT5G36290.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv04s0023g00380.t01 (Vitis vinifera), 5'ss of exon 5
ATACTTTCTACTGGACTTGGTAGGATAGTGCCAAACTTGATATCGAGGAAGCACACCAATAGTGCTGCTACAGgtatgtagttctctcatatggtgtgagtgtgacattgccaatactatagttttgggtttttaaagaatttgctagcttaaa-tgaattgagagtgctatgc
|||| || ||||| ||||| ||||| |||||||| |||||||| |||||||| || |||||||| ||||||||||||||||| | | | ||| | | | || | |||| ||||||| ||| | | || || | || | | ||
GTACTCTCCACTGGGCTTGGCAGGATTGTGCCAAATTTGATATCAAGGAAGCATACAAATAGTGCAGCTACAGgtatgtagtttacgt-ttttatgttgctttattgcagtgcatgtgttcatttttagtttttatgcaatgctttttcatattctgcttcctgattattttgaMapped 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|164166265|gb|EL982334.1|EL982334EST: CCAATAGTGCTGCTACAG TGCTCTATGCATTTTTTGGTTTGCGACTACTCTACATTGCTTGGAGGTCTA
genomic: CCAATAGTGCTGCTACAGgtatgtagtt ... gaaaatgcagTGCTCTATGCATTTTTTGGTTTGCGACTACTCTACATTGCTTGGAGGTCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATACTTTCTACTGGACTTGGTAGGATAGTGCCAAACTTGATATCGAGGAAGCACACCAATAGTGCTGCTACAGgtatgtagttctctcatatggtgtgagtgtgacattgccaatactatagttttgggtttttaaagaatttgctagcttaaatgaattgagagtgctatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT