Sequence
atgc intronic sequence ATGC exonic sequenceTCGACCAAGAGTTAGAGGAAGATTTGCAAAGAATGATGAATTTGGTGAGCCAAATAGACAAGCTTTTTCAAGCCATCATGATGATGAAGATGAAGACGATgtaagaaaaccgggttattttaactcgatttatatgaatttatgtgaaaactaactaagccgattgggtttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G33350.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G33350.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G34250.1 (Glycine max), 5'ss of exon 6
---TCGACCAAGAGTTAGAGGAAGATTTGCAAAGAATGATGAATTTGGTGAGCCAAATAGACAAGCTTTTTCAAGCCATCATGATGATGAAGATGAAGACGATgtaagaaaaccggg--ttatt--ttaactcgatttatatgaatttatgtgaaaactaacta--agccgat-tgggtttacag--------
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TAGCCGACCTCGAGTTAGAGGAAGGTTTGCAAAGAATGATGACTTTGGAGAAACCAATAGA---ACTACTAGTAGCAATCATGAAGAAGATGATGAAGAAGAAgtaagatttccagggttcattcatttattaaacacttaacaggacgctttttattcaactatttgttgatatagttttttaaccctgcag
upper sequence: AT2G33350.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G26990.1 (Glycine max), 5'ss of exon 3
------TCGACCAAGAGTTAGAGGAAGATTTGCAAAGAATGATGAATTTGGTGAGCCAAATAGACAAGCTTTTTCAAGCCATCATGATGATGAAGATGAAGACGATgtaagaaaaccgggttattttaactcgatttatatgaatttatg--tgaaaactaactaag---ccgattgggtttacag--------------------------------------------------------------
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AGATAGCCGGCCCCGGGTTAGAGGAAGGTTTGCAAAGAATGATGAGTTTGGAGAGAGCCATAGACAAGGAAGTAGCAATCATGAAGAAGATGATGAAGAAgtaagattcccttaattggat-acttttgttcaacttgccttagtctaaagttaaaatacaaaaaaattccttatcacttttaccttttcaattatttgatggcataattccatgatgctatatcccttccattttttgtacttgcag
upper sequence: AT2G33350.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G21380.1 (Glycine max), 5'ss of exon 5
------TCGACCAAGAGTTAGAGGAAGATTTGCAAAGAATGATGAATTTGGTGAGCCAAATAGACAAGCTTTTTCAAGCCATCATGATGATGAAGATGAAGACGATgtaagaaaaccgggttat----tttaactcgattta---tatgaatttatgtgaaaactaactaagccgattgggtttacag--------------------------------------------------------------
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GGATAGCCGGCCCCGGGTTAGAGGAAGGTTTGCAAAGAATGATGACTTTGGAGAGAGCCATAAACAAGGAAGTAGCAATCATGAAGATGATGATGAAGAGgtaagattcccttaatcggatactgttgttcaacttgccttagtctaaaaattaaaatacaaaaaaattc--ccgatcacttttaccttttcaattatttgatggcataattccttgatgttatattccttccattttttgtacttgcag
upper sequence: AT2G33350.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G33390.1 (Glycine max), 5'ss of exon 3
---TCGACCAAGAGTTAGAGGAAGATTTGCAAAGAATGATGAATTTGGTGAGCCAAATAGACAAGCTTTTTCAAGCCATCATGATGATGAAGATGAAGACGATgtaagaaaaccgggttattttaactcgatttatatgaatttatgtgaaaactaactaagccgattgggtttacag--------------------------------------------------------------
||||| |||| |||||||| ||||||||||||||||| ||||| || | |||||| || ||| ||||||| || || |||||||| || |||||| || || || | | | | | | || || | ||| | |
TAGCCGACCTCGAGTCAGAGGAAGGTTTGCAAAGAATGATGACTTTGGGGAAACCAATAGA---ACTACAAGTAGCAATCATGAAGAAGATGATGAAGAAGAAgtaagatttccagggctcattcatttattaaacacttaacaggacattttttattcaacttgcccaagttaaaaaaaaaaatccctatcacttgtaccttgtcaattatttgctgatatagttttttaatcctgcag
upper sequence: AT2G33350.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv05s0049g01830.t01 (Vitis vinifera), 5'ss of exon 4
---TCGACCAAGAGTTAGAGGAAGATTTGCAAAGAATGATGAATTTGGTGAGCCAAATAGACAAGCTTTTTCAAGCCATCATGATGATGAAGATGAAGACGATgtaagaaaaccgggttatt-ttaactcgatttatatgaatttatgtgaaaactaactaagccgattgggtttacag--------------
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CAGCAGACCACGAGTTAGAGGAAGATTTGCCAAAAATGATGACTTTGGAGAGGCCCCTAGA---GCCAGTGGTGGACACCATGATGAGGATGACGAGGAAGATgtaagat--ctgatctattacctgtatgagatac-taaatgtggcatgcagcccattaatttcttttcccttttgtattttcccaaacagMapped 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|116378841|gb|EG421433.1|EG421433EST: CAAATAGACAAGCTTTTTCAAGCCATCATGATGATGAAGATGAAGACGAT ATGGGAGTGAAGGATGAGGAACAATTGGTAGATTCTTCAGACATTTTTGCA
genomic: CAAATAGACAAGCTTTTTCAAGCCATCATGATGATGAAGATGAAGACGATgtaagaaaac ... gggtttacagATGGGAGTGAAGGATGAGGAACAATTGGTAGATTCTTCAGACATTTTTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGACCAAGAGTTAGAGGAAGATTTGCAAAGAATGATGAATTTGGTGAGCCAAATAGACAAGCTTTTTCAAGCCATCATGATGATGAAGATGAAGACGATgtaagaaaaccgggttattttaactcgatttatatgaatttatgtgaaaactaactaagccgattgggtttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA