Sequence
atgc intronic sequence ATGC exonic sequence...atctactctgcagaagaggctaattcttgtttgattctagcaatcatctcatacttttcatttttattgcttttggtaacgttcttgatttatttttcagGTTATAAAGTATGAAAGTGTGATTCATGAGTTTGATCCTTACTTCAATTATAGAGTCACTCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G19690.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 1
atctactctgcagaagaggctaattcttgtttgattctagcaatcatctcatacttttcatttttattgcttttggtaacgttctt-gatttatttt--tcagGTTATAAAGTATGAAAGTGTGATTCATGAGTTTGATCCTTACTTCAATTATAGAGTCACTCAG
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--ttcttctgttttttccggca-ctgtagtaggttatctattttcacttgttggccagagttgttcttgctcttcttcacattttttaatgcattgtatacagGTTATAAAGTATGAGAGTGTTATTCACGAGTTTGATCCTTATTTCAACTATAGAGTCACTCAG
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA01G01270.1 (Glycine max), 3'ss of exon 1
atctactctgcagaagaggctaattcttgtttgattctagcaatcatctcatacttttcat---ttttattgcttttggtaacgttctt-gatttatttt--tcagGTTATAAAGTATGAAAGTGTGATTCATGAGTTTGATCCTTACTTCAATTATAGAGTCACTCAG
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-----ttcttctgttttttctggca-ttgtactaggtcatccatttccacttgttggccagagatgctcttgctcttcttcacattttttaatgcattgtatacagGTTATAAAGTATGAGAGTGTTATCCACGAGTTTGATCCTTATTTCAACTATAGAGTCACCCAG
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 1
--------------------------atctactctgcagaagaggcta----attcttgtttgattctagcaat------catctcatacttttcatttttattgcttttggtaacgttcttgatttatttttcagGTTATAAAGTATGAAAGTGTGATTCATGAGTTTGATCCTTACTTCAATTATAGAGTCACTCAG
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gtaactcattggatcttctacgtttttcctgttttatagatcagatcacggaaatgttgttctactttgataattcaaggctttctaggcttgttttgtgaattcgaattcatattagacttggtt-gctttgcagGTTATAAAGTATGAGAGTGTTATTCACGAGTTCGATCCTTATTTCAATTATAGAGTCACTCAGMapped 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|86067003|gb|DR362760.1|DR362760EST: TGATCCTCGTCCTCATTGGTGTCCTCGCTTTCTCGATCCGACTCTTCTCT GTTATAAAGTATGAAAGTGTGATTCATGAGTTTGATCCTTACTTCAATTAT
genomic: TGATCCTCGTCCTCATTGGTGTCCTCGCTTTCTCGATCCGACTCTTCTCTgtgagttcac ... tatttttcagGTTATAAAGTATGAAAGTGTGATTCATGAGTTTGATCCTTACTTCAATTAT
EST:
gi|86067002|gb|DR362759.1|DR362759EST: GATCCTCAGTCCTCATTGGTGTCCTCGCTTTCTCGATCCGACTCTTNTCT GTTATAAAGTATGAAAGTGTGATTCATGATTTTGATCCTTACTT
genomic: GATCCTC-GTCCTCATTGGTGTCCTCGCTTTCTCGATCCGACTCTTCTCTgtgagttcac ... tatttttcagGTTATAAAGTATGAAAGTGTGATTCATGAGTTTGATCCTTACTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctcatacttttcatttttattgcttttggtaacgttcttgatttatttttcagGTTATAAAGTATGAAAGTGTGATTCATGAGTTTGATCCTTACTTCAATTATAGAGTCACTCAG
tttatttttc CT-rich tract
atacttttcattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atctactctgcagaagaggctaattcttgtttgattctagcaatcatctcatacttttcatttttattgcttttggtaacgttcttgatttatttttcagGTTATAAAGTATGAAAGTGTGATTCATGAGTTTGATCCTTACTTCAATTATAGAGTCACTCAG
- - - - - cagaaga
- - - - - - - - - - - - - -tgtttga
- - - - - - - - - - - - - - - - - - - - - - catctca