Sequence
atgc intronic sequence ATGC exonic sequenceCCGGAACTGGCTGCCTTACTCTTAGAGAGCTGAGACGTGGAAATTTAATTGCTGCTATGCAACAACTTGATGAAGAGGACGACATTAATAAAATTATTAGgtgagtttattttttcttttcataatttcctaacaataagtatttgaaattcaaacatattctgttgttatataaggagtaaacaagcttacgaaaatat...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G03960.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G03960.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G148323_T01 (Zea mays), 5'ss of exon 7
CCGGAACTGGCTGCCTTACTCTTAGAGAGCTGAGACGTGGAAATTTAATTGCTGCTATGCAACAACTTGATGAAGAGGACGACATTAATAAAATTATTAGgtgagtttattttttcttttcataatttcctaacaataagtatttgaaattcaaacatattctgttgttatataaggagtaaacaagcttacgaaaatat
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CTGGGAATGGTCATCTGACTCTGAGAGAGCTCAAACGTGGAAATTTAATTGCTGCACTTCAGCAGTTAGATGAGGAAGAAGATATCAACAAAGTGTTGAGgtaatcaattgttagaatacaattgtttggaactggttggtgcatgcaacttaatatggtatcaaacctagatgtcttgagttcaaatcctggttagcgc
upper sequence: AT1G03960.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv07s0005g03730.t01 (Vitis vinifera), 5'ss of exon 8
CCGGAACTGGCTGCCTTACTCTTAGAGAGCTGAGACGTGGAAATTTAATTGCTGCTATGCAACAACTTGATGAAGAGGACGACATTAATAAAATTATTAGgtgagtttatt-----ttttcttttcataatttcc-taacaataagtatttgaaattcaaacatattctgttgttatataaggagtaaacaagcttacgaaaatat
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CAGGAAATGGTCGTCTTACTCTCAGGGAGCTGAAACGTGGAAATTTAATTGCTGCAATGCAACATGCAGATGAGGAAGAGGATATTAACAAAGTTCTGAGgttggtatgctggtggtactttatgcattgtttacattagaacagtaatcaggaactgtgacttaaattgttga-aagcaggaaaatttgatgtatatgag-----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|164157927|gb|ES191412.1|ES191412EST: GACATTAATAAAATTATTAG GTACTTCTCCTATGAGCACTTCTACGTGATATACTGCAAATTTTGGGAACT
genomic: GACATTAATAAAATTATTAGgtgagtttat ... taattttcagGTACTTCTCCTATGAGCACTTCTACGTGATATACTGCAAATTTTGGGAACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCGGAACTGGCTGCCTTACTCTTAGAGAGCTGAGACGTGGAAATTTAATTGCTGCTATGCAACAACTTGATGAAGAGGACGACATTAATAAAATTATTAGgtgagtttattttttcttttcataatttcctaacaataagtatttgaaattcaaacatattctgttgttatataaggagtaaacaagcttacgaaaatat
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA