Sequence
atgc intronic sequence ATGC exonic sequenceCTGTAGAATACCACTGGTTAGCGATATACCGACAATCATTTTTGGCGCAGACGTGACTCACCCAGAGAACGGGGAAGAGTCAAGCCCTTCAATCGCTGCTgtaaggattatacacttttatcaagtagtggagcatcgaaattcattatactcagtttttttcttttgttttctttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G43810.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G43810.2 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA20G28970.1 (Glycine max), 5'ss of exon 15
CTGTAGAATACCACTGGTTAGCGATATACCGACAATCATTTTTGGCGCAGACGTGACTCACCCAGAGAACGGGGAAGAGTCAAGCCCTTCAATCGCTGCTgtaaggat------tatacacttttatcaagtagtggagcatcgaaattcattatactcagtttttttcttttgttttctttag-----------
||| ||||||||| ||||||| || ||||| || || |||||||| ||||| || || |||||||| || || ||||| || ||||||||||| || |||||| || ||| | ||||| || | ||||| | ||| | || ||||| | | | ||||
CTGCAGAATACCATTGGTTAGTGACATACCAACCATAATTTTTGGAGCAGATGTAACCCACCCAGAAAATGGAGAAGACTCGAGCCCTTCAATAGCAGCTgtacttatctaatttatttatctttattt-gttttatagcattgcaata-gtcatcgagggttttggaaactcataatgtttacccaatctacag
upper sequence: AT5G43810.2 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 5'ss of exon 12
CTGTAGAATACCACTGGTTAGCGATATACCGACAATCATTTTTGGCGCAGACGTGACTCACCCAGAGAACGGGGAAGAGTCAAGCCCTTCAATCGCTGCTgtaaggattataca-cttttatcaagtagtggagcatcgaaattcattatactcagtttttttc---ttttgttttctttag-------------------
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TTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATCCAGAGAATGGAGAAGACTCCAGCCCTTCAATTGCTGCTgtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgttgctgatagattgttgtattaattgtagMapped 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|47828868|gb|CK118552.1|CK118552EST: ACGTGACTCACCCAGAGAACGGGGAAGAGTCAAGCCCTTCAATCGCTGCT GTTGTTGCTTCTCAAGACTGGCCTGAAGTGACAAAATATGCGGGTTTAGTT
genomic: ACGTGACTCACCCAGAGAACGGGGAAGAGTCAAGCCCTTCAATCGCTGCTgtaaggatta ... ttttctttagGTTGTTGCTTCTCAAGACTGGCCTGAAGTGACAAAATATGCGGGTTTAGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGTAGAATACCACTGGTTAGCGATATACCGACAATCATTTTTGGCGCAGACGTGACTCACCCAGAGAACGGGGAAGAGTCAAGCCCTTCAATCGCTGCTgtaaggattatacacttttatcaagtagtggagcatcgaaattcattatactcagtttttttcttttgttttctttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT