Sequence
atgc intronic sequence ATGC exonic sequencegtatggtaaaaaactcaaaagtttcctgaactatttagcatatcaggactcaaccgattaagtaatcttcttgaactatttgtttcagGCTGCTGTTAGTGCCCTCCAGCACCAACCTGTAGTAAATGCAGTTATCGATGGAGATGATATCATTTACAGAGACTACGTGGATATCAGTATCGCTGTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G55070.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G55070.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: PP1S2_220V6.1 (Physcomitrella patens), 3'ss of exon 6
-----------gtatggtaaaaaactcaaaagtttcctgaactatttagcatatcaggactcaaccgattaagtaatcttc-ttgaactatttgtttcagGCTGCTGTTAGTGCCCTCCAGCACCAACCTGTAGTAAATGCAGTTATCGATGGAGATGATATCATTTACAGAGACTACGTGGATATCAGTATCGCTGTTG
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gttttcccgctcgacattcctccgctggtgtttttccactttcggtgtgaatactgggagtctattgactggctcgcatgcgctttattgtggaatctagGCAGCTGTGAGTGCACTTAAGCAATTTCCTGCAGTAAATGCGGTAATCGATGGAGATGATATCATATACAGAGACTACATTGACATCAGCATTGCTGTTG
upper sequence: AT5G55070.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: EFJ31629 (Selaginella moellendorffii), 3'ss of exon 6
gtatggtaaaaaactcaaaagtttcctgaactatttagcatatcaggactcaaccgattaagtaatcttcttgaactat-ttgtttcagGCTGCTGTTAGTGCCCTCCAGCACCAACCTGTAGTAAATGCAGTTATCGATGGAGATGATATCATTTACAGAGACTACGTGGATATCAGTATCGCTGTTG
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------------------------------gtattcggcgtggattgcgtaattcaagagtttctttttgctgacagacgtcattttagGCTGCTGTTAGCGCTTTGCAGGCGCAGCCCGTTGTAAACGCTGTGATCGACGGAGATGACATCATTTACAGAGACTACGTCGACATCAGCATTGCTGTTG
upper sequence: AT5G55070.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: EFJ38519 (Selaginella moellendorffii), 3'ss of exon 6
gtatggtaaaaaactcaaaagtttcctgaactatttagcatatcaggactcaaccgattaagtaatcttcttgaactat-ttgtttcagGCTGCTGTTAGTGCCCTCCAGCACCAACCTGTAGTAAATGCAGTTATCGATGGAGATGATATCATTTACAGAGACTACGTGGATATCAGTATCGCTGTTG
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------------------------------gtattcggcgtggattgcttaattcaagagtttctttttgctgacagacgtcattttagGCTGCTGTTAGCGCTTTGCAGGCGCAGCCCGTTGTAAACGCTGTGATCGACGGAGATGACATCATTTACAGAGACTACGTCGACATCAGCATTGCTGTTGMapped 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|164055041|gb|ES144052.1|ES144052EST: CTTGTAAAAGTCACGGAGTGAAGTTGGGGCTTATGTCTGGTTTCATTAAG GCTGCTGTTAGTGCCCTCCAGCACCAACC
genomic: CTTG-AAAAG-CACGGAGTGAAGTTGGGGCTTATGTCTGGTTTCATTAAGgtatggtaaa ... tttgtttcagGCTGCTGTTAGTGCCCTCCAGCACCAACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagcatatcaggactcaaccgattaagtaatcttcttgaactatttgtttcagGCTGCTGTTAGTGCCCTCCAGCACCAACCTGTAGTAAATGCAGTTATCGATGGAGATGATATCATTTACAGAGACTACGTGGATATCAGTATCGCTGTTG
tttgtttc CT-rich tract
attaagtaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggtaaaaaactcaaaagtttcctgaactatttagcatatcaggactcaaccgattaagtaatcttcttgaactatttgtttcagGCTGCTGTTAGTGCCCTCCAGCACCAACCTGTAGTAAATGCAGTTATCGATGGAGATGATATCATTTACAGAGACTACGTGGATATCAGTATCGCTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT