Sequence
atgc intronic sequence ATGC exonic sequenceGCCTGAGAAACGTCAGAGTATGATGTTTTCTGCAACAATGCCGAGTTGGATCAGATCTCTCACTAAGAAGTACCTGAATAATCCTTTGACAGTTGATCTTgtgagtagtcttgtaccctctgaaatttctcacaattctgaataattgatcttggagttagcagagttgttaatgaagtgatttcttatgtgaaatgtgcttctatgtttttgtttgcctaactgtgatgtgttattcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G22330.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G22330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os07g05050.3 (Oryza sativa), 5'ss of exon 3
GCCTGAGAAACGTCAGAGTATGATGTTTTCTGCAACAATGCCGAGTTGGATCAGATCTCTCACTAAGAAGTACCTGAATAATCCTTTGACAGTTGATCTTgtgagtagtcttgtaccctctgaaatttctcacaattctgaataattgatcttggagtta-gcagagttgttaatgaagtgatttcttatgtgaaatgtgcttctatgtttttgtttgcctaactgtgatgtgttattcag
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GCCACAGAACCGTCAAAGTATGTTGTTCTCTGCAACAATGCCCAGTTGGATTAGAAAAATCACAAGCAAGTACTTGAAAGATCCAATCATTATTGACCTAgtgagt-gcctttctcttattttcacctgtga-attcttatcttgtttgtcctggtgtggtgtatcttcttttttttttcttttttttttgcgggaagttca---------------------------------------
upper sequence: AT3G22330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv12s0142g00670.t01 (Vitis vinifera), 5'ss of exon 3
GCCTGAGAAACGTCAGAGTATGATGTTTTCTGCAACAATGCCGAGTTGGATCAGATCTCTCACTAAGAAGTACCTGAATAATCCTTTGACAGTTGATCTTgtgagta-gtcttgtaccctctgaaatttctcacaattctga-ataattgatcttggagttagcagagttgt-taatgaagtgatttcttatgtgaaatgtgcttctatgtttttgtttgcctaactgtgatgtgttattcag-----
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GCCACAAAATCGTCAGAGCATGATGTTCTCTGCAACAATGCCAAGTTGGATTAGGAAGCTTACCCAGAAGTACCTAAAAAATCCATTAACTATTGATCTTgtgagtttggagagtttgtttttccatttcttattcgctggttgtagtaactattatccttttccaagctatattatgaaaaggcatgttcttaactatttgattct-tatgactgcaaacttattaatattg-gatgttcactgtagMapped 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|164196411|gb|ES094301.1|ES094301EST: TCAGATCTCTCACTAAGAAGTACCTGAATAATCCTTTGACAGCTGATCTT GTTGGAGATTC
genomic: TCAGATCTCTCACTAAGAAGTACCTGAATAATCCTTTGACAGTTGATCTTgtgagtagtc ... tgttattcagGTTGGAGATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCTGAGAAACGTCAGAGTATGATGTTTTCTGCAACAATGCCGAGTTGGATCAGATCTCTCACTAAGAAGTACCTGAATAATCCTTTGACAGTTGATCTTgtgagtagtcttgtaccctctgaaatttctcacaattctgaataattgatcttggagttagcagagttgttaatgaagtgatttcttatgtgaaatgtgcttctatgtttttgtttgcctaactgtgatgtgttattcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT