Sequence
atgc intronic sequence ATGC exonic sequenceATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattattcaaatccaaatatcatatgagaactcgattaacacaaggtaacaagatcaaaaagtaaatgattaacttgtgggtgcaatggaaccttgaaactctgaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G23670.2 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os01g70380.1 (Oryza sativa), 5'ss of exon 10
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttct---attat-tcaaatccaaatatcatatgagaactcgatt---aacaca--aggtaacaagatcaaaaagtaaatgattaacttgtgggtgcaatggaac----cttgaaactctgaacag
||||| || |||||||||||||| || || ||||||||||| ||||||||||| || || ||||| || || ||||||||||| || ||| | ||| | || |||| | | ||| | | | || | | || | | || || || || ||| || | ||| ||| | |||| || | || |||
TTTTGAAGTTCTTGGAGACAATGACTCGCCGGTCATGCCTATCATGCTTTACAATCCTGCTAAAATACCTGCGTTCTCAAGAGAGTGCCTGAGGCAACACgtgagttttcaaaatatacctcacctaacgaataaatcatgctttagttttgaatccagtagcacacataatttcttcactgaaaattctgctgtttgactaatgtgacatgtttcataattctag----
upper sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 5'ss of exon 10
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattattcaaatccaaatatcatatgagaactcgattaacacaaggtaacaagatcaaaaagtaaatgattaacttgtgggtgcaatggaacct-tgaaactctgaacag-----
|||||||| || ||||||||||| || ||||| ||||| |||||||| ||||| ||||| ||||| |||||||| || || || || || ||||||| || ||| | ||| || | | |||| | || | || | | | | || | || | | | | || || || | ||| ||
TTTTGAGGTTCTCGGAGACAATGACTCTCCAGTTATGCCAATAATGCTCTACAATCCAGCCAAAATTCCAGCTTTTTCCAGGGAGTGCCTTAGACAAAAGgttagtaatggtatagaatgctatttatcttcagaaatggtacagaataatggtttttgccagttttttgtcgttccctagcccctat-taccgtgcgactgatgtggcactgg-catttcag
upper sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os01g70370.1 (Oryza sativa), 5'ss of exon 10
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattat--tcaaatccaaatatcatatgagaactcgattaacacaaggtaacaagatcaaaaagtaaatgattaacttgtgggtgcaatggaaccttgaaactctgaacag-------------------
||||| || ||||||||||| || || || ||||||||||| ||||||||||| || || ||||| || || ||||||||||| || ||| | ||||| || |||| |||| | |||| | |||| || | | | || | ||||| | || || | ||||| ||| | | |||| |||
TTTTGAAGTTCTTGGAGACAACGACTCGCCTGTCATGCCTATCATGCTTTACAATCCTGCTAAAATGCCTGCATTCTCAAGAGAGTGCCTGAGGCAAAAGgttagttttattttcttcaataactaataattcatt-gttttagttttgaattcggtaatacacccagaatctcttctattaa-ttgcaaattttttttctgattgaccaatgtgacaacatattttcataattctag
upper sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G010202_T02 (Zea mays), 5'ss of exon 9
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattattcaaatccaaatatcatatg---agaactcgat--taacacaaggtaacaaga-----tcaaaaagtaaatgattaacttgtgggtgcaatggaaccttgaaactctgaacag
|||||||| |||||||| |||||||| || ||||||||||| ||||||||||| || || ||||| || || |||||||| || || ||| | ||| || |||||| || |||| || | | || || || | | | | ||| || | ||| || ||| | | | | |||| || || | | ||| | ||||
TTTTGAGGTTCTTGGAGATAATGATTCACCTGTCATGCCTATCATGCTTTACAATCCTGCTAAAATTCCTGCATTCTCAAGGGAGTGCCTGAGGCAAGCTgtgagttct--catacaaa-ccgtctgttatgtgcctagcatacagtgcttacatctcttagcgagagtttgtctcaaaaaagttcctcattttgtaagttcactaata---tgatctattccacag
upper sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 10
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattattcaaatccaaatatcatatgagaactcgattaacacaagg----taacaagatcaaaaagtaaatgattaacttgtg------ggtgc-aatggaacct---tgaaactctgaacag---------------------------------------------------------------------
|||||||| ||||| ||||||||||| || || ||||| |||||||||||||| || || || ||||| || ||||| || || || || ||||||| || ||| || || || | ||| | ||| | | || ||| | | | | | |||| |||| ||| | ||||| ||| | | | || | || | |
TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatagagtttg--tcagactat--tctgaagatccagatagcactatgcttttggtacagttttcttttaaaatattactttgagaagtctggtgctaatagcagttgcatgtagtccttatccatcactatttgcacccatcggttttgttcttcctctttgtcatgcggctaataagacacttatatttcag
upper sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 10
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattattcaaatccaaatatcatatgagaactcgat-taacacaaggtaacaagatcaaaaagtaaatgatta--acttgtgggtgcaatggaaccttgaaactctgaacag
||||||||| ||||| || |||||||| ||||| ||||| || |||||||||||||| || |||||||| || ||||||||||| || || || || ||||| || | || ||| | | | | | || | | | | | || | || || | |||| ||| | || || | ||
ATTTGAGGTTCTTGGGGATAATGATTCTCCAGTAATGCCAATCATGCTTTACAACCCCGCCAAAATCCCTGCCTTCTCAAGAGAGTGCCTCAAGCAGAATgtaagatcaaacatccaactttatgctccttgtcgataccctacatcatgtataagaatgaaattgttaa-tcaatgtttaccatttttgaattcag-----------------------
upper sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA02G07250.1 (Glycine max), 5'ss of exon 10
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattattcaaatccaaatatcatatgagaactcgattaacacaaggtaacaagatcaaaaagtaaatgattaacttgtgggtgcaatggaaccttgaaactctgaacag
||||||||| ||||| || |||||||| ||||| ||||| || |||||||||||||| || |||||||| || || |||||||| || || || || || || | || | | |||||| |||| | | | || | || | || || || || | |||| | || | |||| || |
ATTTGAGGTTCTTGGGGATAATGATTCTCCAGTAATGCCAATCATGCTTTACAACCCGGCCAAAATCCCTGCCTTTTCAAGAGAGTGCCTCAAGCAGAATgtgagaac-atcaa--atatccaactatc---tatgctccttgttgataccctacatcata--taagaatgaatttgttaattaatgtttacaattttttatttcag----------
upper sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv17s0000g00500.t01 (Vitis vinifera), 5'ss of exon 11
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattattcaaatccaaatat----cat--atgagaactcgattaacac-aaggtaacaagatcaaaaagtaaatgattaacttgtgggtgcaatggaacct-tgaaactctgaacag-------------------------------------------
|||||||| |||||||| |||||||| || || ||||| |||||||||||||| ||||| ||||| || || || || | || ||||| ||| || ||||| | ||| || | || | | || ||| ||| || | | || ||| | | | | || | | | | | || | | | || |||
CTTTGAGGTTCTTGGAGATAATGATTCTCCTGTAATGCCAATAATGCTTTACAATCCAGCCAAAATTCCTGCCTTTTCGCGGGAGTGTCTCAAACAGAATgtaagctttatctttaatttctatacattcaccattcatgtcttttcattcttgattaaagtagctgcaatacagagattccaagtcattcatttgtatagcactgctcattaatctccagttcaagttcacttgtgtggctagtattgacaagttatgctgttccagMapped 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|125206098|gb|EL221052.1|EL221052EST: ACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAA GTGGCAGTGGTGGTCGTGGGTTTCCCAGCTACACCTCTACTGCTGGCTAGG
genomic: ACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttcta ... ctctgaacagGTGGCAGTGGTGGTCGTGGGTTTCCCAGCTACACCTCTACTGCTGGCTAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattattcaaatccaaatatcatatgagaactcgattaacacaaggtaacaagatcaaaaagtaaatgattaacttgtgggtgcaatggaaccttgaaactctgaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA