Sequence
atgc intronic sequence ATGC exonic sequenceAGATGGCGTCGGCGCTAAAATGGATTCCATGGACTTAGAACGAGAGAAAGGTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAGgtgagcagatagatagatagagatctttcttaattaatcctattgaattgagctttgaaatgaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G45332.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G056393_T01 (Zea mays), 5'ss of exon 1
AGATGGCGTCGGCGCTAAAATGGATTCCATGGACTTAGAACGAGAGAAAGGTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAGgtgagcagatagatagatagaga-tctttcttaattaatcctattgaattgagc--------tttgaaatgaacag------------------------
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TGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgtttgttctgattgatcgatccgtttccctttgttatagaccccggatggttgtgatttcgttgttg
upper sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 5'ss of exon 1
AGATGGCGTCGGCGCTAAAATGGATTCCATGGACTTAGAACGAGAGAAAGGTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAGgtgagcagatagatagatagagatctttct-taattaatcctattgaattgagctttgaaatgaacag--------------------------------
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CGATGGAGTAGGTGCGAAGATGGATTCCATGGATTTAGAAAGAGAGAAGGGGATCACGATTCAGTCTGCTGCTACCTACTGTACTTGGAAAGATTATCAGgtgtgtgtggattcagttggttccgtttctatggttgatgacaaaatgtaggaaaaaggaaagaaaagaaattgttgaattttgacttagtttgtactaa
upper sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S100_33V6.1 (Physcomitrella patens), 5'ss of exon 1
AGATGGCGTCGGCGCTAAAATGGATTCCATGGACTTAGAACGAGAGAAAGGTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAGgt--gagcagat-----------agatagatagagatctttcttaattaatcctattgaattgagctttgaaatgaacag----------------------
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GGATGGAGTCGGCGCGAAGATGGATTCTATGGACCTGGAACGAGAGAAGGGAATTACCATTCAGTCCGCTGCTACGTACTGTACTTGGGGTGATAATCAGgtttgggcattttttctgcgctgacatgagcgacgggccaccggaatctaaggtgt--aattaagagagggattgtaaagttgatgagaacaatagatatca
upper sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ36205 (Selaginella moellendorffii), 5'ss of exon 1
AGATGGCGTCGGCGCTAAAATGGATTCCATGGACTTAGAACGAGAGAAAGGTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAGgtgagcagatagatagatagagatctttcttaattaatcctattgaattgagctttgaaatgaacag
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GGATGGCGTCGGCGCCAAGATGGATTCCATGGACCTGGAGCGCGAGAAAGGGATCACCATCCAGTCCGCAGCGACGCACTGCGTTTGGGGTGACCACCAGgtgag---atggacgtttttcattcccttacaaa-gtttcgactttgtttctttctag---------
upper sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ18610 (Selaginella moellendorffii), 5'ss of exon 1
AGATGGCGTCGGCGCTAAAATGGATTCCATGGACTTAGAACGAGAGAAAGGTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAGgtgagcagatagatagatagagatctttcttaattaatcctattgaattgagctttgaaatgaacag
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GGATGGCGTCGGCGCCAAGATGGATTCCATGGACCTGGAGCGCGAGAAAGGGATCACCATCCAGTCCGCAGCTACGCACTGCGTTTGGGGTGACCACCAGgtgag---atggacgtttttcattcccttacaaa-gtttcaattttgtttctttctag---------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|19874474|gb|AU235305.1|AU235305EST: GTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAG GTTAATATAATTGGTACTCCTGGTCATGTTGACTTCACCATTGAAGTGGAG
genomic: GTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAGgtgagcagat ... aaatgaacagGTTAATATAATTGATACTCCTGGTCATGTTGACTTCACCATTGAAGTGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGGCGTCGGCGCTAAAATGGATTCCATGGACTTAGAACGAGAGAAAGGTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAGgtgagcagatagatagatagagatctttcttaattaatcctattgaattgagctttgaaatgaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG