Sequence
atgc intronic sequence ATGC exonic sequenceACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G59290.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 5
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag
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ACAATAAAGACAAATGTGATTGGAACACTGAACATGCTTGGTCTTGCTAAGCGTGTGGGAGCAAGgttatctctctttttcgaaatacaaaagttgatagcctataccattaccatctgttgattttacaagttgtaattttgattgacag--
upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G06990.1 (Glycine max), 5'ss of exon 6
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgtt--caggacatcttc------tgct--tcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag---
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ACAATAAAGACAAATGTGATTGGTACACTGAACATGCTTGGGCTTGCCAAGCGAGTTGGGGCAAGgttggtaaattgtctttggaaaatgataatttcagcttctatcatcagttggtctttattctttttcttcttgttagtcttagttcttattttattggcag
upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 6
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag
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ACAATAAAGACAAATGTGATTGGAACACTGAACATGCTTGGGCTTGCTAAGCGTGTGGGAGCAAGgtt-atctctttttctaaatacaaaagtg-gatgatctacatcattgccatccgtgtatcttacaagtagtaattttgattgacag--
upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 7
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag
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ACAATAAAGACAAATGTGATTGGCACACTGAACATGCTTGGGCTTGCAAAGCGAGTAGGAGCAAGgtt-gggatattttct------taaacaataatctcaac-tgctgccat--tagttggtctt--aattagttctaattttattgacag
upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA15G04500.2 (Glycine max), 5'ss of exon 7
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag
||||| ||||| ||||||||||| ||||| |||||||| || || || ||||| || ||||||||||| ||| || |||| || |||| || | | || || | | | | ||| | | | | || | || | |
ACAATAAAGACAAATGTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgtt-gggatattttct------taaacaataatttcaac-tgctgccatta-gttggtcttaattagtttgaattttattggcag---
upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G15020.1 (Glycine max), 5'ss of exon 6
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag--------------------
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ACAATAAAGACAAATGTGATTGGCACACTGAACATGCTTGGGCTTGCAAAACGAGTTGGGGCAAGgtt-ggaaaattgtct--ttggaaaatgataatttcagc-ttctatcatcat-ttggtctttattctttttctttttagtagagtcttagttcttattttattggcag
upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 6
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag
||||| || || || || ||||||||||| || ||||| || |||||||| || |||||||||||||| ||| | | || | | ||| || | | ||| | ||| || ||| | | |||| | | || |||
ACAATAAAAACAAACGTCATTGGTACACTGAATATGCTGGGACTTGCCAAACGAGTTGGAGCAAGgtttgggatttgacttcattttattcctttaaccaggatcat-----aaatttctcaatttattaaat-tatgttaatgtttaa-cag
upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 6
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgta---actatttgttcttttcgaaacag----------
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ACCATCAAGACAAATGTGATTGGTACGCTCAACATGCTTGGACTCGCTAAACGAGTTGGTGCAAGgtgcaaaattctttgtatatcttgctctttaatttc-tcttgtcaccaggaaactggcagctggacttacgatttcatgttatgtatactgcaagtagctc
upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ17446 (Selaginella moellendorffii), 5'ss of exon 5
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctatttt--ctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag
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ACCATCAAAACGAATGTGATGGGCACACTAAATATGCTGGGCCTTGCCAAGCGTGTTGGAGCCAGgttaatctcctctcttgtcacaagagcaagcaaactaactcgcattctcaaaccatacag------------------------------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|125256603|gb|EL270688.1|EL270688EST: GTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAG AATTTTACTAACCTCAACCT
genomic: GTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggaca ... ttcgaaacagAATTTTACTAACCTCAACCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG