Sequence
atgc intronic sequence ATGC exonic sequenceTTCCAGTTCAGGTTTTGGCCTAATAATAACAGCAGGATGTACGTTTTGGAGGGTGTGACTCCTTGCATACAGTCCATGCAGTTGCAAGCTGGTGACACTGgtacttttcaaatccttttgtttcgttaactacattcataacatattgataaacccaccctggtatggataaatgaaacattggcactaaagcgttccaatcatgaggacagtgaaatacattccacgaagagatgaccgtacttttctattaggtctgatgtcttggattttccatgttctctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32010.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32010.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G172621_T01 (Zea mays), 5'ss of exon 6
TTCCAGTTCAGGTTTTGGCCTAATAATAACAGCAGGATGTACGTTTTGGAGGGTGTGACTCCTTGCATACAGTCCATGCAGTTGCAAGCTGGTGACACTGgtacttttcaaatccttttgtttcgttaactacattcataa---catattgataaacccaccctgg---tatggataaatgaaacattggcactaaagcgttccaatcatgaggacagtgaaatacattccacgaagagatgaccgtacttttctattaggtctgatgtcttggattttccatgttctctgcag
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TTTCAGTTTAGGTTTTGGCCAAATAATAACAGCAGAATGTATGTCTTGGAGGGTGTTACACCATGCATACAGTCTTTGCAATTACAAGCTGGCGATACAGgta-------aaacatcttatttccttggacatgatcataagcatctatttgcaagcacgcgcttcacttcttccttgattgaagtttgtttttaatac-tacctata--------------------------------------------------------------------------------------
upper sequence: AT4G32010.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G158162_T03 (Zea mays), 5'ss of exon 6
TTCCAGTTCAGGTTTTGGCCTAATAATAACAGCAGGATGTACGTTTTGGAGGGTGTGACTCCTTGCATACAGTCCATGCAGTTGCAAGCTGGTGACACTGgtacttttcaaatc--cttttgtttcgttaactacattcataacatattgataaacccaccctggtatggataaatgaaacattggcactaaagcgttccaatcatgaggacagtgaaatacattccacgaagagatgaccgtacttttctattaggtctgatgtcttggattttccatgttctctgcag
|| ||||| ||||||||||| |||||||||||||| ||||| || ||||||||||| || || |||||||| || |||| || |||||||| || || |||| || ||| | | | | ||| | |||||| | | || | | | | || | | ||| || | || ||| | | || ||
TTTCAGTTTAGGTTTTGGCCAAATAATAACAGCAGAATGTATGTCTTGGAGGGTGTTACACCATGCATACAATCATTGCAATTACAAGCTGGCGATACAGgtaattagcaatttagcatctatttgcaagcatgcattca---cttctttcttgattgaagtttgttt---ttaatactacgtatatggtatagc-tacttattatt-----------------------------------------------------------------------------------
upper sequence: AT4G32010.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA03G04330.1 (Glycine max), 5'ss of exon 8
TTCCAGTTCAGGTTTTGGCCTAATAATAACAGCAGGATGTACGTTTTGGAGGGTGTGACTCCTTGCATACAGTCCATGCAGTTGCAAGCTGGTGACACTGgtacttttca-----aatccttttgtttcgttaactac--attcataacatattgataaacccaccctggtatggataaatgaaacattggcactaaagcgttccaatcatgaggacagtgaaatacattccacgaagagatgaccgtacttttctattaggtctgatgtcttggattttccatgttctctgcag
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TTTCAGTTTAGATTTTGGCCAAATAATAACAGCAGGATGTATGTTTTAGAAGGTGTAACCCCCTGCATTCAGTCTATGCAATTGCAAGCTGGAGATACTGgtatgttttactgaggatcccttaatttattaaactactcattcttagaata--gataaacc-------acatgtacacttt---cattttc-taagagtatatcaactacta----------------------------------------------------------------------------------
upper sequence: AT4G32010.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA01G32810.1 (Glycine max), 5'ss of exon 11
TTCCAGTTCAGGTTTTGGCCTAATAATAACAGCAGGATGTACGTTTTGGAGGGTGTGACTCCTTGCATACAGTCCATGCAGTTGCAAGCTGGTGACACTGgtacttttca-----aatccttttgtttcgttaactacattcataacatattgataaacccaccctggtatggataaatgaaacattggcactaaagcgttccaatcatgaggacagtgaaatacattccacgaagagatgaccgtacttttctattaggtctgatgtcttggattttccatgttctctgcag
|| || || || |||||||| |||||||||||||||||||| ||||| || ||||| || || ||||| ||||| ||||| ||||||||||| || ||||||| ||| | ||||| || ||| || || ||| | || |||||||| ||||| | | |||| | | | | ||| | |
TTTCAATTTAGATTTTGGCCAAATAATAACAGCAGGATGTATGTTTTAGAAGGTGTAACCCCCTGCATTCAGTCTATGCAATTGCAAGCTGGAGATACTGgtatgttttactgagaatcccttaatttggtaaattacccattctaagaatagataaacc-------acatggacacttt---cattttc-taagaatatatcaactaata----------------------------------------------------------------------------------
upper sequence: AT4G32010.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv08s0058g01300.t01 (Vitis vinifera), 5'ss of exon 7
TTCCAGTTCAGGTTTTGGCCTAATAATAACAGCAGGATGTACGTTTTGGAGGGTGTGACTCCTTGCATACAGTCCATGCAGTTGCAAGCTGGTGACACTGgtacttttcaaatccttttgtttcgttaactacattcataacatattgata--aacccaccctggtatggataaatgaaacattggcactaaagcgttccaatcatgaggacagtgaaatacattccacgaagagatgaccgtacttttctattaggtctgatgtcttggattttccatgttctctgcag
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TTCCAATTCAGGTTTTGGCCCAATAATAACAGCAGGATGTATGTTTTAGAGGGTGTGACCCCATGCATACAGTCAATGCAGTTACAAGCTGGAGATACTGgtaacttctattgcctgct-tcgtattttatgtaggcatgccacaacaattttagcatatttaataatcaacaaa--aactaatggttgtgaagtcattcgtc---------------------------------------------------------------------------------------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|116471406|gb|EG513998.1|EG513998EST: GGGTGTGACTCCTTGCATACAGTCCATGCAGTTGCAAGCTGGTGACACTG TAACATTCAGCCGTACAGAACCTGAAGGAAAACTCGTAATGGGATACCGTA
genomic: GGGTGTGACTCCTTGCATACAGTCCATGCAGTTGCAAGCTGGTGACACTGgtacttttca ... ttctctgcagTAACATTCAGCCGTACAGAACCTGAAGGAAAACTCGTAATGGGATACCGTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCCAGTTCAGGTTTTGGCCTAATAATAACAGCAGGATGTACGTTTTGGAGGGTGTGACTCCTTGCATACAGTCCATGCAGTTGCAAGCTGGTGACACTGgtacttttcaaatccttttgtttcgttaactacattcataacatattgataaacccaccctggtatggataaatgaaacattggcactaaagcgttccaatcatgaggacagtgaaatacattccacgaagagatgaccgtacttttctattaggtctgatgtcttggattttccatgttctctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG