Sequence
atgc intronic sequence ATGC exonic sequenceGCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCCgtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaagaagtacttagaccagccttttcactttgctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G51610.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G02280.2 (Glycine max), 5'ss of exon 3
GCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCCgtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaagaagtacttagacca-gccttttcactttgctcag--
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GCGCTACTTGCTTATGGTTTATCTAGCTCGAGGCGTGCACCAGATGCTATTCATCCgtgagtcttgattatgtttctcacccctgcttccctattttttgttatgtactcgatatggagctgatttttaaatctcgaatgttgaacatgtatgatt
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv09s0054g00220.t01 (Vitis vinifera), 5'ss of exon 4
GCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCCgtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaag-aagtacttagaccagccttttcactttgctcag---
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GCTCTTCTTGCATATGGTCTGAGTAGCTCAAGGCGTGCTCCAGATGCTATCCACCCgtgagtatttcatttcagag-gtcacctttggcatcgatgttcttgtctttgttatatttacattgacttcaccattcagcatatggatcaaactttatct
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S152_49V6.1 (Physcomitrella patens), 5'ss of exon 4
GCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCCgtgagtct-----ctctagtaatcttgtata-ctgtatggtagaacagaacagctttctcttgtttgaa-gaagtacttagaccagccttttcactttgctcag
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GGTTTACTTGCATATGGCCTAATCAGCTCCCGTCGTGCCCCAGATGCTCTTCATCCgtacgtttgaaaaccttttcagatacacacaactgtagag-agaattttacagtgttgatttgattcaatgtgataattag-catgaatgcaaatgaaggtt--
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ15192 (Selaginella moellendorffii), 5'ss of exon 4
GCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCCgtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaagaagtacttagaccagccttttcactttgctcag
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GGTTTGCTTGCGTATGGTCTCGTCAGCTCAAAGCGTGCTCCAGATGCTCTTCATCCgtgagtgt------tagttccacttgccattc------------caattttcatttatactgacggtttgtttgttcg--cttttcag---------
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ09820 (Selaginella moellendorffii), 5'ss of exon 2
GCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCCgtgagtctc---tctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaagaagtacttagaccagccttttcactttgctcag
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GGGTTGCTTGCGTATGGTCTCGTCAGCTCAAAGCGTGCTCCAGATGCCCTTCATCCgtgagtgttagttccacttgccat-tccaattttcatttatactgacggttgttcttttgttcgc-----ttttcag-----------------------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|116466669|gb|EG509261.1|EG509261EST: CTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCT CTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGG
genomic: CTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCCgtgagtctct ... ctttgctcagCTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCCgtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaagaagtacttagaccagccttttcactttgctcag
- - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - CAGATG