Sequence
atgc intronic sequence ATGC exonic sequenceTTCAGATAAACCAATGCCTAGAGGGGAGATTGTGGTAGGTGGTAACAGTGTAACAGCAGGTTACTTCAACAATCAAGAAAAAACCGATGAGGTTTACAAGgtaaagcacattcagggagcttagttgatccgcttgctatatagatttctgagaatccatgtgacgatttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G04350.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G04350.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os05g25310.2 (Oryza sativa), 5'ss of exon 9
TTCAGATAAACCAATGCCTAGAGGGGAGATTGTGGTAGGTGGTAACAGTGTAACAGCAGGTTACTTCAACAATCAAGAAAAAACCGATGAGGTTTACAAGgtaaagcacattcagggagcttagttgat--ccgcttgctatatagatttctgagaatcc---atgtgacgatttcag
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TTCTGATTCTCCAATGCCCCGAGGAGAGGTTGTAGTTGGTGGATACAGCATAACAAAAGGTTATTTCAACAATGAAGCAAAAACAAATGAGGTCTACAAGgtaaaggatctttgccaatcatccttggtggtcaaatacaatatttttcacttcaatttttgtttctgattactccag
upper sequence: AT2G04350.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA13G11700.1 (Glycine max), 5'ss of exon 9
TTCAGATAAACCAATGCCTAGAGGGGAGATTGTGGTAGGTGGTAACAGTGTAACAGCAGGTTACTTCAACAATCAAGAAAAAACCGATGAGGTTTACAAGgtaaagcaca---ttcagggagcttagttgatccgcttgctatatagatttctgagaatccatgtga---cgatttcag-----------------------------------------------
||||||||||||||||| || || |||||||| || || || ||||| ||||| |||||||| || |||||||||||||| | || || | |||||||| || || | | | || || || |||| || || | | | | | | |||
ATCAGATAAACCAATGCCAAGGGGAGAGATTGTAGTTGGAGGATTTAGTGTGACAGCTGGTTACTTTAAGAATCAAGAAAAAACTAAAGAAGTGTTCAAGgtaatttccaaacttatagttgtatgcatgccatttttcctttataatttcctttaatttctctttaatttgcttttgcatattactaagacacttgttacatttttgttttttaacttagtacag
upper sequence: AT2G04350.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G07280.1 (Glycine max), 5'ss of exon 8
TTCAGATAAACCAATGCCTAGAGGGGAGATTGTGGTAGGTGGTAACAGTGTAACAGCAGGTTACTTCAACAATCAAGAAAAAACCGATGAGGTTTACAAGgtaa---agcacattcagggagcttagttgatccgcttgctatatagatttctgagaatccatgtga--cgatttcag-----------------------------------------------------
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ATCAGATAAACCAATGCCAAGGGGAGAGATTGTAGTTGGAGGATTTAGTGTGACAGCTGGTTACTTTAAGAATCAAGAAAAAACTAACGAAGTGTTCAAGgtaatttcccaagttacagttgtatgcatgacatttttcctttttaatttcctttaactgctcttaaatctgtttttgcatattactaagccactcgttacattttttttttgttttttaacttagtacagMapped 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|164113349|gb|ES140545.1|ES140545EST: CAATCAAGAAAAAACCGATGAGGTTTACAAG GTCGATGAGAAGGGCACAAGGTGGTTTTACACCGGAGATATTGGGAGATTC
genomic: CAATCAAGAAAAAACCGATGAGGTTTACAAGgtaaagcaca ... acgatttcagGTCGATGAGAAGGGCACAAGGTGGTTTTACACCGGAGATATTGGGAGATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCAGATAAACCAATGCCTAGAGGGGAGATTGTGGTAGGTGGTAACAGTGTAACAGCAGGTTACTTCAACAATCAAGAAAAAACCGATGAGGTTTACAAGgtaaagcacattcagggagcttagttgatccgcttgctatatagatttctgagaatccatgtgacgatttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA