Sequence
atgc intronic sequence ATGC exonic sequenceATCTGTGAAGAAGATTATTGAAATTAATCCTTATATGCTTGGTACAATGGCTGGTGGTGCTGCTGATTGTCAATTCTGGCACAGAAATCTGGGAATTAAGgtaccctaacgttagtttttgttagctttctgaattgatgattgggtctatcagttatcttccttgctgtggcaatccggttacttcttaccttcccttt...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G26340.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G26340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os06g06030.1 (Oryza sativa), 5'ss of exon 3
ATCTGTGAAGAAGATTATTGAAATTAATCCTTATATGCTTGGTACAATGGCTGGTGGTGCTGCTGATTGTCAATTCTGGCACAGAAATCTGGGAATTAAGgt---accctaacgttagtttttgttagctttctgaattgatgattgggtctatcagttatcttccttgctgtggcaatccggttacttcttaccttcccttt
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AACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGGCATCAAGgttagatttcaac-ttgattgtacttgcatttcatcattgcaga---gaactaaaagtaggttatgcttttcag-----------------------------
upper sequence: AT3G26340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G102596_T02 (Zea mays), 5'ss of exon 3
ATCTGTGAAGAAGATTATTGAAATTAATCCTTATATGCTTGGTACAATGGCTGGTGGTGCTGCTGATTGTCAATTCTGGCACAGAAATCTGGGAATTAAGgtaccctaacgttagtttttgttagctttctgaattgatgattgggtctatcagttatcttccttgctgtggcaatccggttacttcttaccttcccttt
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AACCGTGAGGAAAATTATTGAAATAAATCCTTACATGCTGGGGACAATGGCTGGAGGTGCTGCTGATTGCCAATTTTGGCATAGGAACCTAGGAACCAAGgt---cagaagtcggcttc------ctttc---aataattatctcttatgttgcccctttgcagggtggggctaacataggttcttttcag---------
upper sequence: AT3G26340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA06G17960.1 (Glycine max), 5'ss of exon 4
ATCTGTGAAGAAGATTATTGAAATTAATCCTTATATGCTTGGTACAATGGCTGGTGGTGCTGCTGATTGTCAATTCTGGCACAGAAATCTGGGAATTAAGgtaccctaacgttagtttttgttagctttctgaattg-atgattgggtctatcagttatctt--ccttgctgtggcaatccggttacttcttaccttcccttt--
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GTCTGTGAAGAAGATTATTGAAATTAATCCGTATATGCTTGGGACAATGGCTGGAGGTGCTGCTGATTGTCAGTTTTGGCACAGGAATCTTGGGATCAAGgtaatcta-tgcaaccttg----aaccttgtatattgcatggttgcttttgtctgttctgttatctttaggtcagtctcctgcaaaatttctgccctagtttccc
upper sequence: AT3G26340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA04G37030.3 (Glycine max), 5'ss of exon 4
ATCTGTGAAGAAGATTATTGAAATTAATCCTTATATGCTTGGTACAATGGCTGGTGGTGCTGCTGATTGTCAATTCTGGCACAGAAATCTGGGAATTAAGgtaccctaacgttagtttttgttagct-ttctgaattgatgattgggtctat-cagttatcttccttgctgtggcaatccggttacttcttaccttcccttt
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GTCTGTGAAGAAAATTATCGAAATCAATCCGTATATGCTTGGGACAATGGCTGGTGGTGCTGCTGATTGCCAGTTTTGGCACAGGAATCTCGGGATTAAGgtaatctt-tgcaaccttgagcttacaatcttgcatggttgcttttgcctgttctgttatctttaggtcagtctcctgccgaattgctgcaatagtctccc-
upper sequence: AT3G26340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv01s0010g02900.t01 (Vitis vinifera), 5'ss of exon 4
ATCTGTGAAGAAGATTATTGAAATTAATCCTTATATGCTTGGTACAATGGCTGGTGGTGCTGCTGATTGTCAATTCTGGCACAGAAATCTGGGAATTAAGgtaccctaacgttagtttttgttagctttctgaattgatgattgggtctatcagttatcttccttgctgtggcaatccggt--tacttcttaccttcccttt
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ATCTGTGAAGAAAATTATTGAAATTAATCCCTACATGCTTGGCACAATGGCTGGAGGAGCTGCTGATTGCCAGTTTTGGCACAGAAATTTGGGCATTAAGgtaatgta-tttttgttgttttctctaatttgcactctttttcaggcctgtgatctacaataatta-tggaatgatttgatagtactggttctgctactgtaMapped 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|124821954|gb|EH906820.1|EH906820EST: TGGCACAGAAATCTGGGAATTAAG TGCCGTCTACATGAGCTGGCAAACAAAAGGAGAATCTCTGTTTCAGGAGCT
genomic: TGGCACAGAAATCTGGGAATTAAGgtaccctaac ... tgtatcatagTGCCGTCTACATGAGCTGGCAAACAAAAGGAGAATCTCTGTTTCAGGAGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCTGTGAAGAAGATTATTGAAATTAATCCTTATATGCTTGGTACAATGGCTGGTGGTGCTGCTGATTGTCAATTCTGGCACAGAAATCTGGGAATTAAGgtaccctaacgttagtttttgttagctttctgaattgatgattgggtctatcagttatcttccttgctgtggcaatccggttacttcttaccttcccttt
- - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttccct