Sequence
atgc intronic sequence ATGC exonic sequencegtgagttatcttttcgccactcatggttgaggtagagtagttatttctttgacttgctatgcagcgttggactgatgtttcatctgattcctacagGCAGCAATTATCTCCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G28470.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: LOC_Os09g15750.1 (Oryza sativa), 3'ss of exon 20
gtgagttatcttttcgccactcatggttgaggtagagtagttatttctttgacttgctatgcagcgttgg-actgat--gtttcatctgattcctacagGCAGCAATTATCTCCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCA
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---------------gttagtaac--ctcactaacaaaacctaccatattaagtt-ctatg-agcattgatatttattcaatcaaattggtacatgcagGCTGCAATAATCTCCCTGGGCTTGATAGGGGCTGGTACAAACAATGCCCGAATAGCTGGGATGCTTCGGAACCTCTCAAGTTATTATTACAAAGAAGCAG
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: LOC_Os06g48640.2 (Oryza sativa), 3'ss of exon 20
gtgagttatcttttcgccactcatggttgaggtagagtagttatttctttgacttgctatgcagcgttggactga---tgtttcatctgattcctacagGCAGCAATTATCTCCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCA
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------------------gttagtaacctcaccagcaaaacctaccatattaatttctatg-agcattgattttaatttgatcaaactggtacatgcagGCTGCAATCATCTCCCTGGGCTTGATAGGGGCTGGTACAAACAATGCCCGTATAGCTGGGATGCTTCGGAACCTCTCAAGTTATTATTACAAAGAAGCAG
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GRMZM2G155384_T02 (Zea mays), 3'ss of exon 20
gtgagttatcttttcgccactcatggttgaggtagagtagttatttctttgacttgctatgcagcgttggactgatgtttcatctgattcctacagGCAGCAATTATCTCCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCA
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-----------gttcgt-atttatcaatcctttcacctagcctttcctttg--ttatcatgtatcatatatatgtggct--attaaatttctccagGCTGCAATTATCTCATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTG
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA12G13410.1 (Glycine max), 3'ss of exon 20
gtgagttatcttttcgccactcatggttgaggtagagtagttatttctttgacttgctatgcagcgttggactgatgtttcatctgattcctacagGCAGCAATTATCTCCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCA
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----gtaagatgttagtctct------ttactttgaacatttgggtctatattttatt-tgtagc--taaaacaat---ttatatgcttc----agGCAGCTGTTATCTCCTTGGGTCTGATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCTAGTTATTACTACAAGGATACCAMapped 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|47828942|gb|CK118626.1|CK118626EST: TGGACACTTTGAGCAGACTAAGCCATGACACAGATTCAGAAGTTGCAATG GCAGCAATTATCTCCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGG
genomic: TGGACACTTTGAGCAGACTAAGCCATGACACAGATTCAGAAGTTGCAATGgtgagttatc ... attcctacagGCAGCAATTATCTCCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttctttgacttgctatgcagcgttggactgatgtttcatctgattcctacagGCAGCAATTATCTCCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCA
ttcctac CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttatcttttcgccactcatggttgaggtagagtagttatttctttgacttgctatgcagcgttggactgatgtttcatctgattcctacagGCAGCAATTATCTCCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG