Sequence
atgc intronic sequence ATGC exonic sequenceTTTCTACTGTTGCATCTGCTGATGAGGCTGAACATGGTCTGGAGTGTCCTAACTACCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTCgtgagtgttcaagctacaattcaatcatcatagtgaaattgcaacactaaagttgaaaattagagaaatttgagactgctttactgacggttgatttgtaatgagcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G40810.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G40810.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 5'ss of exon 4
TTTCTACTGTTGCATCTGCTGATGAGGCTGAACATGGTCTGGAGTGTCCTAACTACCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTCgtgagtgttcaagctacaattcaatcatcatagtgaaattgcaacact--aaagttgaaaattagagaaatttgagactgctttactgacggttgatttgtaatgagcag
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TTGCTACAATAGCTTCTGCAGATGAAGCTGAGCATGGTTTGGCAGCAGCTGAATATCCCTGGCCACATGCTGGCATTCTTAGCTCTTATGACCATGCATCgtgagtcatcctttttcaacttccttacaaaatagagtttagctcattgcaatatttcagagtctttgcatacggtatttggttattattaattgatcca----------
upper sequence: AT5G40810.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 3
TTTCTACTGTTGCATCTGCTGATGAGGCTGAACATGGTCTGGAGTGTCCTAACTACCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTCgtgagtgt----tcaagctacaattcaatcatcatagtgaaattgcaacactaaagttgaaaattagagaaatttgagactgc-tttactgacggttgatttgtaatgagcag
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TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCTAGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttgacctgaaatttctctacattttcctttctatttttcttgctcaacaat--atgatttgcgaagttagcaactatgttcagtcaaactagtccc-----------
upper sequence: AT5G40810.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA19G22530.2 (Glycine max), 5'ss of exon 3
TTTCTACTGTTGCATCTGCTGATGAGGCTGAACATGGTCTGGAGTGTCCTAACTACCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTCgtgagtgttcaagctacaattcaatca---tcatagtgaaattgcaacactaaagttgaaaattagagaaatttgagactgctttactgacggttgatttgtaatgagcag
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TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCAAGCTATCCATGGCCTCACAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagt--ttgacctgaaatttctctacattttcctttctattttcttgctcaacaatatgatttgtgaagttagcaaccatgttttgtcaaactagtccct---------
upper sequence: AT5G40810.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv09s0002g05950.t01 (Vitis vinifera), 5'ss of exon 2
TTTCTACTGTTGCATCTGCTGATGAGGCTGAACATGGTCTGGAGTGTCCTAACTACCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTCgtgagtgttcaagctacaattca-atcatc-atagtgaaattgcaacactaaagt-----tgaaaattagagaaatttgagactgctttactgacggttgatttgtaatgagcag
|| | || | || ||| | ||||||||||||||||| |||| ||||| ||||| || ||||| || ||||||||||| ||||||||||||||||||| || || |||| | | | ||| || | ||| | | | || | | || |||||| | | | | || | | | || |||
TTGCAACAATAGCTTCTTCAGATGAGGCTGAACATGGCCTGGCATGTCCAAACTATCCATGGCCTCACAGCGGCATTCTCAGTTCATATGACCATGCTTCgtaag----cagattacatcttatgttatctattacgcaatctatagaaaagtgtcttgataggactttgagaaactaaacatcggttcaaaggcc-ttcccttg----------
upper sequence: AT5G40810.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 3
TTTCTACTGTTGCATCTGCTGATGAGGCTGAACATGGTCTGGAGTGTCCTAACTACCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTCgtgagtgttca---agctacaattcaatcatcatagtgaaattgcaacactaaagttgaaaattagagaaatttgagactgctttactgacggttgatttgtaatgagcag
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TTGCAACAATAGCATCTGCTGATGAGGCTGAGCATGGATTAGAATGTGCAAACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtctattgaatttaagatcaatc-ttgcagagaatt---gatcctaagacacagacaacttgactctcaacaaatatttatctcaaatttat--ataatc-----Mapped 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|124980747|gb|EL053676.1|EL053676EST: CCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTC GATCCGTCGTGGTCACCAAGTTTATCAGCA
genomic: CCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTCgtgagtgttc ... taatgagcagGATCCGTCGTGGTCACCAAGTTTATCAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTCTACTGTTGCATCTGCTGATGAGGCTGAACATGGTCTGGAGTGTCCTAACTACCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTCgtgagtgttcaagctacaattcaatcatcatagtgaaattgcaacactaaagttgaaaattagagaaatttgagactgctttactgacggttgatttgtaatgagcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA