Sequence
atgc intronic sequence ATGC exonic sequencegtattatcctatgtggatcaatgttggggagtgttgacctattatttccactccatacaagatgacgtcaactatttatttaccctttgcagGTACGCAAAGAGAAAGCTATCTATCATACATTGAACATGCTTAGTCTTGATGTGACGAAGAAGTGCCTCGTGGCCGAGGGCTGGAGTCCTGTCTTTGCAT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G39080.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G39080.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os10g10500.1 (Oryza sativa), 3'ss of exon 8
-------------------------------------------------------gtattatcctatgtggatcaatgttggggagtgttgacctattatttccactccatacaagatgacgtcaactatttatttaccctttgcagGTACGCAAAGAGAAAGCTATCTATCATACATTGAACATGCTTAGTCTTGATGTGACGAAGAAGTGCCTCGTGGCCGAGGGCTGGAGTCCTGTCTTTGCAT
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gtaagcttgtattattcaagatgttttctgtaaattccctaccccacaaattttcaacctatactatttgaataacttttacg---tctgtatattttcttttgcttgaatttaagttcttttgtgttttttatacaaatgtgccagGTAAAGAAAGAAAAAGCTATTTACCACACATTAAACATGTTGAGTCTTGATGTGACAAAGAAATGCTTGGTTGCTGAGGGATGGAGTCCGGTGTTTGCAA
upper sequence: AT4G39080.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA11G12120.1 (Glycine max), 3'ss of exon 8
----gtattatcc--tatgtggatcaatgttgg---ggagtgttgacctattatttccactccatacaagatgacgtcaactatttatttaccctttgcagGTACGCAAAGAGAAAGCTATCTATCATACATTGAACATGCTTAGTCTTGATGTGACGAAGAAGTGCCTCGTGGCCGAGGGCTGGAGTCCTGTCTTTGCAT
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atttccattctcaagtatacaatttacttgtagattgatatatttttctattggtcttaatgtttaatttttcttgacaa-tattctttaaattcatgaagGTGAGGAAGGAGAAATCTATTCATCATACCCTGAACATGCTGAGCCTTGATGTGACAAAAAAATGTCTTGTGGCTGAGGGGTGGAGTCCTGTTTTTGCAA
upper sequence: AT4G39080.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA12G04330.1 (Glycine max), 3'ss of exon 8
-gtattatcctatgtggatcaatgttggggagtgttgacctattatttcca-----ctccatacaagatgacg-tcaactat-ttatttaccctt-tgcagGTACGCAAAGAGAAAGCTATCTATCATACATTGAACATGCTTAGTCTTGATGTGACGAAGAAGTGCCTCGTGGCCGAGGGCTGGAGTCCTGTCTTTGCAT
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attatcattctcaagtatacaatttacttgtagattaatttatt-tttctattggtcttaatgtttaatttttcttgactatattctttaaattcatgaagGTGAGGAAGGAGAAATCTATTCATCATACCCTGAACATGCTGAGCCTTGATGTAACAAAAAAATGTCTTGTGGCTGAGGGGTGGAGTCCTGTTTTTGCAAMapped 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|125011444|gb|EL083713.1|EL083713EST: AGTTTGAACTATGG-ACCTCAAG GTACGCAAAGAGAAAGCTATCTATCATACATTGAACATGCTTAGTCTTGAT
genomic: AGTTTGAACTATGGAACCTCAAGgtattatcct ... ccctttgcagGTACGCAAAGAGAAAGCTATCTATCATACATTGAACATGCTTAGTCTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctattatttccactccatacaagatgacgtcaactatttatttaccctttgcagGTACGCAAAGAGAAAGCTATCTATCATACATTGAACATGCTTAGTCTTGATGTGACGAAGAAGTGCCTCGTGGCCGAGGGCTGGAGTCCTGTCTTTGCAT
tttatttacccttt CT-rich tract
tcaactatttattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattatcctatgtggatcaatgttggggagtgttgacctattatttccactccatacaagatgacgtcaactatttatttaccctttgcagGTACGCAAAGAGAAAGCTATCTATCATACATTGAACATGCTTAGTCTTGATGTGACGAAGAAGTGCCTCGTGGCCGAGGGCTGGAGTCCTGTCTTTGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA