Sequence
atgc intronic sequence ATGC exonic sequenceATAGCTGCATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACATATTTTCTgtaagtccaaaactcataccctctctgttgctcccccaatatatttgttacatatatcttatcagctctaccatcaatttgaagaaagttgcaaaacactggttaaattatattgtatcttgttttccctgttattacttttcgttactgatactctcttcatgttcttgttggaag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14210.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 5'ss of exon 5
ATAGCTGCATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACATATTTTCTgtaagtccaaaactcataccctctctgttgctcccccaatatatttgttacatatatcttatcagctctaccatcaatttgaagaaagttgcaaaacactggttaaattatattgtatcttgttttccctgttattacttttcgttactgatactctcttcatgttcttgttggaag
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ATAGCTGCTTGGAAGGATGAAGATGGAGATTGGTATGAAACTGGGCTTCATATCTTTTgtaagtaataactctggatttttaaggttctcgttgtgctatattt----tatttaggttattaccgccagcactgat---agatatctctaagggttttgaacaaa----------------------------------------------------------------------
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G410515_T01 (Zea mays), 5'ss of exon 5
ATAGCTGCATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACATATTTTCTgtaagtccaaaactcataccctctctgttgctcccccaatatatttgttacatatatcttatcagctctaccatcaatttgaagaaagttgcaaaacactggttaaattatattgtatcttgttttccctgttattacttttcgttactgatactctcttcatgttcttgttggaag
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GTAGCTGCTTGGAAGGATGAAGATGGAGATTGGTACGAGACTGGGCTTCATATCTTTTgtaagtt-acagttctggtccttgaggt--cctcttcatcatattt----catgttcttgattatttcttttagaaa---aattacagtt--aaaatgatggtttctacaca-----------------------------------------------------------------
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 5'ss of exon 5
ATAGCTGCATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACATATTTTCTgtaagtccaaaactcataccctctctgttgctcccccaatatatttgttacatatatcttatcagctctaccatcaatttgaagaaagttgcaaaacactggttaaattatattgtatcttgttttccctgttattacttttcgttactgatactctcttcatgttcttgttggaag
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GTGGCTGCATGGAAAGATGAGGATGGAGACTGGTATGAGACAGGCCTACATATATTCTgtaagcttatg--taactctcatttttttagtttgtgattgtgaacctta-----attttgttggtgtcattgcc----caggaagggcttctgatcggagttttggtttt------------------------------------------------------------------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|116473796|gb|EG516388.1|EG516388EST: ATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACATATTTTCT TCGGTGCTTATCCGAATGTGCAGAATTTATTTGGAGAACTTGGGATCAATG
genomic: ATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACATATTTTCTgtaagtccaa ... ttgttggaagTCGGTGCTTATCCGAATGTGCAGAATTTATTTGGAGAACTTGGGATCAATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATAGCTGCATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACATATTTTCTgtaagtccaaaactcataccctctctgttgctcccccaatatatttgttacatatatcttatcagctctaccatcaatttgaagaaagttgcaaaacactggttaaattatattgtatcttgttttccctgttattacttttcgttactgatactctcttcatgttcttgttggaag
- - - - TGGAAG
- - - - - - AGGATG
- - - - - - - - TGAAGA
- - - - - - - - - AAGATG