Sequence
atgc intronic sequence ATGC exonic sequenceGTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatccttgtgcaactcatttagtttttgctcctgtgtaaaatgcttattagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G57650.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G037104_T02 (Zea mays), 5'ss of exon 5
GTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatccttgtgcaactcatttagtttttgctcctgtgtaaaatg--cttattagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
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GTTATTGGCTGGTCAATGTGGTTTGCAGAGTACCTCTTTTTGGAAAGGAGCTGGGCCAAGGATGAAAAGACACTAAAGgtaattctccaccttagc--tgtacaagacatcctactttttctttttcacatattgagctttttatttttggcatacag----------------------------------------------------------------------------------
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM5G878139_T02 (Zea mays), 5'ss of exon 4
GTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatcc---ttgtgcaactca-tttagtttttgctcctgt-gtaaaatgcttattagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
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GTCATTGGCTGGTCAATGTGGTTTGCAGAGTACCTCTTTTTGGAGAGGAGCTGGGCCAAGGATGAAAAGACACTAAAGgtaactctccaccttacctatattgggcatcctagttttcctttttttcacatagtgagctttttaattttgcatacag--------------------------------------------------------------------------------------
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA19G32420.1 (Glycine max), 5'ss of exon 6
GTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatccttgtgcaactcatttagtttttgctcctgtgtaaaatgcttattagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
||||| ||||||||||||||||| || |||||||| |||||||| |||| ||||||||||||||||||||| |||||||||| | || || | || | || | ||| ||||| | | || | || | || | | | ||| || | || ||
GTCATTGGCTGGTCAATGTGGTTTTCTGAGTATCTTTTTCTGGAGAGAAGTTGGGCCAAGGATGAAAGCACATTAAAGgtatgacatgctaaaata--taattaatttatatgttttatgctcataagataaggg---atacatgcttgtgtttgtcaaactgatgtctttttt--cttacttat-----------------------------------------------------
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA03G29600.1 (Glycine max), 5'ss of exon 6
GTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatccttgtgcaactcatttagtttttgctcctgtgtaaaatgcttattagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
||||| ||||||||||||||||| || |||||||| |||||||| |||| ||||||||||||||||||||| |||||||||| | || || | || | || | ||| ||||| ||| || | || ||| ||| | | | | | | | | | |
GTCATTGGCTGGTCAATGTGGTTTTCTGAGTATCTTTTTCTGGAGAGAAGTTGGGCCAAGGATGAAAGCACATTAAAGgtatgacatgctaaaata--taattaatttatatgttttatgctc----ataagata---agggatacatgc-----ttatgtttgtcaaatcgatgtcttcttatttcttact----------------------------------------------
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G31320.1 (Glycine max), 5'ss of exon 6
GTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatccttgtgcaactcatttagtttttgct--cctgtgtaaaatgcttattagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
||||| || |||||||||||||| || || ||||| || ||||| |||| |||||||||||||||| |||| |||||||||||||| | | | || |||| || | || | | | || | |||| || || | || ||| || | |
GTCATTGGTTGGTCAATGTGGTTTTCTGAATATCTTTTCCTGGAGAGAAGTTGGGCCAAGGATGAACGCACATTAAAGgtatgggtt------actcaaatataattcatatatgtgctgtatgctcataagagattcgtatttctacttgttatcttattgtcttctcattcattcaccgaga--------------------------------------------------------
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G12560.2 (Glycine max), 5'ss of exon 5
GTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatccttgtgcaactcatttagtttttgctcctgtgtaaaatgcttattagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
||||| || |||||||||||||| || || ||||| || ||||| |||| |||||||||||||||| |||| ||||||||| |||| | || | | || | | | ||||| | || || | |||| || || || ||| || | |
GTCATTGGTTGGTCAATGTGGTTTTCTGAATATCTTTTCCTGGAGAGAAGTTGGGCCAAGGATGAACGCACATTAAAGgtataggttactgaaata--taattcatatatgtgctgtatgctc--ataaaagattcatatttctacatggtatcttaatgtcttctcattcattcaccgaga--------------------------------------------------------
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv08s0007g08110.t01 (Vitis vinifera), 5'ss of exon 6
GTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatccttgtgcaactcatttagtttttgctcctgtgtaaa-atgctt--attagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
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GTGATAGGTTGGTCAATGTGGTTTTCTGAGTATTTATTTCTGGAAAGAAACTGGGCCAAGGATGAAAGCATAATAAAGgtactgctgcagcaaaaattttctgaatatgtactgtgtatgtgtgtgtacatatatgcttgcacaaatccttatattcgagctgttcacatcgatctttttcaattttttatgacattgtatctgcag----------------------------------
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S14_62V6.1 (Physcomitrella patens), 5'ss of exon 5
----------------------GTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatccttgtgc-aactcatttagtttttgctcctgtgtaaaatgcttattagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
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GAAGTCTACCAAATTTCTTCCGGTAATTGGCTGGTCTATGTGGTTCTCGGAGTATGTGTTTTTGTCAAGAAATTGGACCAAAGACGAGAAAGTTTTGAAGgtattgatt--------cctcacgcgaatttaattgattgttattc-tgtacctgttaggttttaagatgta-agct---tcaattacgtattgcacttttgaaacatgtctg-tcttggtgtgtgcgcag------------------------------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|124993043|gb|EL065312.1|EL065312EST: AGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAG TCAGGTCTTCAGCGCTTGAGCGACTTCCCT
genomic: AGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggttt ... aaatttacagTCAGGTCTTCAGCGCTTGAGCGACTTCCCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCATAGGCTGGTCAATGTGGTTCTCGGAGTATCTCTTTCTGGAAAGAAATTGGGCCAAGGATGAAAGCACTCTAAAGgtatgggtttatagtatccttgtgcaactcatttagtttttgctcctgtgtaaaatgcttattagcacgtgcagctacctcgttcatgaggggattagcctaaaaatgcagaatcttcatttccagaccatgagttatgtgtgtttgtctaaatttacag
- - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG