Sequence
atgc intronic sequence ATGC exonic sequenceCCATATTAGTTTCTACTTTCCAGGGGCACGAGCAATTTTCACCGGGGACACCTTGTTTAGCTTATCATGTGGTAAACTCTTCGAAGGTACTCCAGAGCAGgtaaacatcatttatctaatctttggttctctctgaacttgactttattaagtgtcagttgttttaattggttttcaacaatctgcatcttttgctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G06130.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G06130.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G42070.2 (Glycine max), 5'ss of exon 5
CCATATTAGTTTCTACTTTCCAGGGGCACGAGCAATTTTCACCGGGGACACCTTGTTTAGCTTATCATGTGGTAAACTCTTCGAAGGTACTCCAGAGCAGgtaaacatcatttatctaatctttggttctctctgaacttgactttattaagtgtcagtt--gttttaattggtt---ttcaacaatctgcatcttttgctgcag
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CCATATAAGCTTCTATTTTCCTGGATCTGGGGCAATTTTTACTGGAGACACTTTGTTTAGCTTATCATGTGGCAAGCTCTTTGAAGGAACCCCACAGCAGgttggttttaattgtacctgtccttttttttttttcctttaaaggtttgagatttctatccagtgataagttgttgcatcttgggatatgtattattttt-----
upper sequence: AT1G06130.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G05470.2 (Glycine max), 5'ss of exon 5
CCATATTAGTTTCTACTTTCCAGGGGCACGAGCAATTTTCACCGGGGACACCTTGTTTAGCTTATCATGTGGTAAACTCTTCGAAGGTACTCCAGAGCAGgtaaacatcattta--tctaatct-----ttggttctct--ctgaacttgactttattaagtgtcagttgttttaattggttttcaacaatctgcatcttttgctgcag
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TCATGTAAGCTTCTACTTTCCAGGTTCTGGGGCAATTTTTACTGGAGACACCTTGTTCAGCTTATCATGTGGCAAGCTCTTAGAAGGAACCCCCGAACAGgttgatttgaattgcttttagtttctcattttgttttctggttgtacatttctatcttcagggacaagtgattgcatc---ttgttgcaatgtttctttcttg------
upper sequence: AT1G06130.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G13470.1 (Glycine max), 5'ss of exon 5
CCATATTAGTTTCTACTTTCCAGGGGCACGAGCAATTTTCACCGGGGACACCTTGTTTAGCTTATCATGTGGTAAACTCTTCGAAGGTACTCCAGAGCAGgtaaacatcattt--atctaatctttggttctctctgaacttg-actttattaagtgtcagttgttttaattggttttca--acaatctgcatcttttgctgcag
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TCATGTAAGCTTCTACTTTCCGGGTTCTGGGGCAATTTTTACCGGAGACACTTTGTTCAGCTTATCATGTGGCAAGCTCTTAGAAGGAACCCCCAAACAGgttgatttgaattgcatttagtttcacattttttttctggttgtacatttctatctttagggacaagtaattgcctcttgttgcaatatttatttcttgt-----
upper sequence: AT1G06130.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA15G03320.1 (Glycine max), 5'ss of exon 5
CCATATTAGTTTCTACTTTCCAGGGGCACGAGCAATTTTCACCGGGGACACCTTGTTTAGCTTATCATGTGGTAAACTCTTCGAAGGTACTCCAGAGCAGgtaaacatcatttatctaatctttggttctctctgaacttgactttattaagtgtcagttgttttaattggttttcaacaatctgcatcttttgctgcag----
|||||| || ||||| ||||| || | | |||||||| || || ||||| ||||| |||||||||||||| || ||||| ||||| || ||| ||||||| | | || | | | | || | ||| || | | ||||| | || || || | | ||||||||| | |
CCATATAAGCTTCTATTTTCCTGGATCTGGGGCAATTTTTACTGGAGACACTTTGTTCAGCTTATCATGTGGCAAGCTCTTTGAAGGAACCCCACAGCAGgttgttttaaattgt---acttgtccttttttcttcttttttttcttttaaggtttgagatttctatccagtaataggttgt-tgcatctttggacgtgcctta
upper sequence: AT1G06130.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv05s0102g01180.t01 (Vitis vinifera), 5'ss of exon 7
CCATATTAGTTTCTACTTTCCAGGGGCACGAGCAATTTTCACCGGGGACACCTTGTTTAGCTTATCATGTGGTAAACTCTTCGAAGGTACTCCAGAGCAGgtaaacatcattta---tctaatctttggttctctctgaacttgactttattaagtgtcagttgttttaattggttttcaacaatctgcatcttttgctgcag
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CCACATTAGCTTCTACTTTCCGGGATCAGGGGCAATTTTTACAGGGGACACTTTGTTCAGTCTATCATGTGGCAAACTTTTCGAAGGAACTCCTGAACAGgtaaattttgactggagttacatttcttgttctttttctgtccagggctttaaaccatc---taaattatacactcaaacatgccatgtatccttttttggaaMapped 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|164105575|gb|ES213124.1|ES213124EST: CCTTGTTTAGCTTATCATGTGGTAAACTCTTCGAAGGTACTCCAGAGCAG ATGCTAGCTTCTCTACAGAGGATAATTGCGTTGCCAGA
genomic: CCTTGTTTAGCTTATCATGTGGTAAACTCTTCGAAGGTACTCCAGAGCAGgtaaacatca ... tttgctgcagATGCTAGCTTCTCTACAGAGGATAATTGCGTTGCCAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCATATTAGTTTCTACTTTCCAGGGGCACGAGCAATTTTCACCGGGGACACCTTGTTTAGCTTATCATGTGGTAAACTCTTCGAAGGTACTCCAGAGCAGgtaaacatcatttatctaatctttggttctctctgaacttgactttattaagtgtcagttgttttaattggttttcaacaatctgcatcttttgctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG