Sequence
atgc intronic sequence ATGC exonic sequenceGTGACGCCTAATCTCTATGGTAATCTAGTGGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAGgtaataataaaattcattttaccttgatctaatgtacaagcactatagagaagtagattctcttgcttatgctatgaaattttctgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G17130.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G17130.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os02g38200.1 (Oryza sativa), 5'ss of exon 3
GTGACGCCTAATCTCTATGGTAATCTAGTGGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAGgtaa-taataaaattcattttaccttgatctaatgt-acaagcacta-tagagaagtagattctcttgctt---atgctatgaaattttctgtag-----
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GTCACGCCAAATCTTTATGGCAATCTGGTGGCTAACACGGCTGCAGGTATTGCTGGAGGCACTGGTGTCATGCCTGGAGgtaaattttgaactatcgcttgtaattctgtacttttacctgcacaaatagtcaatacggctatcaggagctggaaaccgacaggcttgcttttgcagtt
upper sequence: AT2G17130.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os04g40310.2 (Oryza sativa), 5'ss of exon 3
GTGACGCCTAATCTCTATGGTAATCTAGTGGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAGgtaataataaaattcattttaccttgatctaatgtacaagcactatagagaagtagattctcttgcttatgctatgaaatttt-ctgtag------------
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GTTACACCAAACCTTTATGGCAATTTGGTTGCTAACACGGCTGCAGGTATTGCTGGAGGGACAGGTGTTATGCCTGGAGgtaggatcttaacttttaccttgttcctttaattcgtataagcaacagcacactaaacaatc--ggctgggagacaatatttttctgtcaccgacaatattt
upper sequence: AT2G17130.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G006672_T01 (Zea mays), 5'ss of exon 2
GTGACGCCTAATCTCTATGGTAATCTAGTGGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAGgtaataataaaatt-cattttaccttgatctaatgtacaagcactatagagaagt--------agattctcttgcttatgctatgaaattttctgtag--
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GTCACCCCAAATCTTTATGGCAATCTGGTGGCTAATGTAGCTGCAGGTATTGCTGGAGGCACTGGTGTCATGCCTGGAGgtagggtttcaactatgatttatgaatcctacatatgcaaataacatacttggttttatgtaaagttgtatttgttaaggcccataaggcccatattgcc
upper sequence: AT2G17130.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 3
GTGACGCCTAATCTCTATGGTAATCTAGTGGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAGgtaataataaaattcattttaccttgatctaatgtacaagcactatagagaagtagattctct-tgcttatgctatgaaattttctgtag----------
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GTTACGCCTAATCTTTATGGCAATTTGGTGGCTAACACGGCTGCAGGTATTGTTGGAGGGACGGGCATCATGCCTGGAGgtagggattgcagctaattctttattatttgttgttttcccctctgaaaaaaatgttctggcagcgtttcatttctgtaatttattacaaaaaataatgt
upper sequence: AT2G17130.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA14G00500.1 (Glycine max), 5'ss of exon 2
GTGACGCCTAATCTCTATGGTAATCTAGTGGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAGgtaataataaaattcattttaccttgatctaatgtacaagcactatagagaagtagattctcttgcttatgctatgaaattttctgtag
||||| |||||||||||||| ||||||||||| || || || ||||| ||||| || || ||||| |||||||| ||||||||| || | || | | ||| | | | | ||||||| || | | | ||| ||| |
GTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATTGCCGGTGGCACTGGGGTCATGCCCGGAGgtaattg-aatacaaatacaataataatcgttcattctattg--aataagaagtaaataaa-tggttggtgcaatgcag----------
upper sequence: AT2G17130.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S152_81V6.1 (Physcomitrella patens), 5'ss of exon 3
GTGACGCCTAATCTCTATGGTAATCTAGTGGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAGgtaa--taataaaattcattttaccttgatctaa----tgtacaagcactatagagaagtagattctcttgct-tatgctatgaaattttctgtag----
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GTAACACCAAATTTGTATGGAACACTGGTGGCCAATACTGCAGCTGGTATTGCAGGCGGAACTGGAGTCATGCCTGGAGgtaccctactccatttcattataatatctcataacttttgcttcaaaataatcaaagactgtagtgacttagtacatatttctttttcacttggagcaccMapped 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|116429007|gb|EG471599.1|EG471599EST: GGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAG GAAATGTTGGGGCGGAGTATGCGGTCTTTGAGCAAGGTGCATCAGCGGGAA
genomic: GGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAGgtaataataa ... ttttctgtagGAAATGTTGGGGCGGAGTATGCGGTCTTTGAGCAAGGTGCATCAGCGGGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGACGCCTAATCTCTATGGTAATCTAGTGGCAAACACTGCTGCTGGTATTGCTGGAGGTACTGGAGTCATGCCTGGAGgtaataataaaattcattttaccttgatctaatgtacaagcactatagagaagtagattctcttgcttatgctatgaaattttctgtag
- - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG