Sequence
atgc intronic sequence ATGC exonic sequenceGTTCGGTTGAAGAGATACTTGGAGATGAGAGGTGCTGATGGAGGTCCCTGGAGGAGGCTGTGTGCCCTGCCAGCTTTCTGGgtaactacatctattagcacatatatatttcgtgcttaatgagaatgtttcaaaaagtattgactgttgttttgattttatctacaaatttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G23100.3 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G23100.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os07g27790.1 (Oryza sativa), 5'ss of exon 12
GTTCGGTTGAAGAGATACTTGGAGATGAGAGGTGCTGATGGAGGTCCCTGGAGGAGGCTGTGTGCCCTGCCAGCTTTCTGGgtaactacatctattagcacatatatatttcgtgcttaatgagaatgtttcaaaaagtattgactgttgttttgattttatc-tacaaatttcag-----------------------------------------------------------------------------------
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GTCAGGCTGAAGCGATATCTAGAGATGAGAGGTGCTGATGGTGGCCCATGGAGGAGATTGTGTGCTTTGCCAGCATTTTGGgttcgttagcttactcctttgcacttcttttgtatttc-tgtacactttgcagtgtggtcttggtgtcaagtagaagtaaacacaaagagtttggacatgggtactgtagtaatttatatcttccatgttctataggaagaattttgaaccagttttggaattggtacttgtatacag
upper sequence: AT4G23100.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G020096_T01 (Zea mays), 5'ss of exon 11
GTTCGGTTGAAGAGATACTTGGAGATGAGAGGTGCTGATGGAGGTCCCTGGAGGAGGCTGTGTGCCCTGCCAGCTTTCTGGgtaactacatctattagcacata--tatatttcgtgcttaatgagaatgtttcaaaaagtattgactgttgttttgattttatctacaaatttcag---------------------------------------------------------
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GTTAGGTTAAAGAGATACCTTGAGATGAGAGGTGCTGATGGTGGCCCATGGAGGAGATTGTGTGCGCTGCCTGCATTTTGGgtttgtg-atctgctttcctttgactttgttttgtatttctgtgcactgccactgacagccacaagt-taatatcaatatggtctctctgcggtagtagtttatttctagtttttgctggaagttttaatcagaattttgtttatgtctacag
upper sequence: AT4G23100.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA08G01750.2 (Glycine max), 5'ss of exon 11
GTTCGGTTGAAGAGATACTTGGAGATGAGAGGTGCTGATGGAGGTCCCTGGAGGAGGCTGTGTGCCCTGCCAGCTTTCTGGgtaactacatctattagcacatatatatttcgtgcttaatgagaatgtttcaaaaagtattgactgttgttttgattttatctacaaatttcag---------
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GTCAGGCTGAAGAGATATTTGGAGATGAGAGGTGCTGATGGAGGGCCTTGGAGAAGGTTATGTGCTTTACCAGCATTTTGGgtgagtgacctttttactacttgtgcacgatgtttgtggtcacttagcctctgacatt-tggattgttcact--gtattatttgtcaacatcaaaatggtttc
upper sequence: AT4G23100.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA05G37850.3 (Glycine max), 5'ss of exon 12
GTTCGGTTGAAGAGATACTTGGAGATGAGAGGTGCTGATGGAGGTCCCTGGAGGAGGCTGTGTGCCCTGCCAGCTTTCTGGgtaactacatctattagcacatatatatttcgtgcttaatgagaatgtttcaaaaagtattgactgttgttttgattttatctacaaatttcag---------
|| || ||||||| || |||||||||||||||||||||||||| || ||||| || ||||||| | ||||| || ||||| | | | ||| || | | || || | | | | || | | | | || |||| | | |||| | || |||
GTCAGGCTGAAGAGGTATTTGGAGATGAGAGGTGCTGATGGAGGGCCTTGGAGAAGATTGTGTGCTTTACCAGCATTTTGGgtgagtggcctttttactacttctgcatgatgtttgtggtcacttagcctctgacatt-tggattgttcact--gtattatttgtcaacatcaaaatggtgtc
upper sequence: AT4G23100.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv02s0025g03530.t01 (Vitis vinifera), 5'ss of exon 12
GTTCGGTTGAAGAGATACTTGGAGATGAGAGGTGCTGATGGAGGTCCCTGGAGGAGGCTGTGTGCCCTGCCAGCTTTCTGGgtaactacatctattagcacatatat--atttcgtgcttaat--gagaatgtttcaaaaagtattgactgttgttttgattttatctacaaatttcag--
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GTCAGGCTGAAGAGATACTTGGAAATGAGGGGTGCTGATGGAGGGCCCTGGAGGAGGTTATGTGCTTTGCCAGCATTTTGGgtagttagcctcttcaatctgtatatttattacaaagccagtttgtacatgattcagtaatcatcagtactcatctgtatggaataagtgtatcttttccMapped 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|163969308|gb|ES026796.1|ES026796EST: GATGGAGGGTCCCTGGAGGAGGCTGTGTGCCCTGCCAGCTTTCTGG GTGGGTTTATTATATGATGATGATAGTCTCCAAGCTATCCTGGATCTGA
genomic: GATGGA-GGTCCCTGGAGGAGGCTGTGTGCCCTGCCAGCTTTCTGGgtaactacat ... caaatttcagGTGGGTTTATTATATGATGATGATAGTCTCCAAGCTATCCTGGATCTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTCGGTTGAAGAGATACTTGGAGATGAGAGGTGCTGATGGAGGTCCCTGGAGGAGGCTGTGTGCCCTGCCAGCTTTCTGGgtaactacatctattagcacatatatatttcgtgcttaatgagaatgtttcaaaaagtattgactgttgttttgattttatctacaaatttcag
- - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG