Sequence
atgc intronic sequence ATGC exonic sequenceACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttaccctattcttgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G67580.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os02g39010.1 (Oryza sativa), 5'ss of exon 2
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttaccctattcttgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt
|||| || ||||||||||| |||||||| ||||| | |||| ||||||||||||||| | |||||||| || || ||||||| || | |||||||||||| | | |||| || || || | ||| | || | ||| || | || ||| || | || | |
ACAACCGCGGTGAGTTGAAAATATGTGATTTTGGACTCTCTCGTCAATATGGCAGCCCGTTAAAGCCTTACACCCAGTTGGTTGTGACTTTGTGGTACAGgtaagtcat-tagacagtctatagtttcatacaatcagtctaactcaaaatttaacttatccatggtctt---attaca-tgctccttatgactgcag--
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os04g41100.4 (Oryza sativa), 5'ss of exon 2
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttaccctattcttgtttataaaaaaattaagtggtgtttacatttacgattgt------tatttga-attctggtggactttcttgtttttttt---
| || || ||||||||||| |||||||| ||||| | |||| |||||||| |||||||| || ||||| ||||| ||||||| || | ||||||||||| | || | | | | || | | ||| ||| | ||||| | ||| | |||| | || ||| | || |
ATAACCGTGGTGAGTTGAAAATATGTGATTTTGGACTATCTCGTCAATATGGAAGCCCGCTAAAACCTTACACTCAATTGGTTGTGACTTTGTGGTACAGgtaggtctttggtcaacatcagattcatccccagtgtt-ttggcttgccattaatttttccattgtgagctctgtttatcaatctgacctgcctttttgctccttctcag
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G115755_T01 (Zea mays), 5'ss of exon 2
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttacccta---ttct----tgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggac--tttcttgtttttttt--------
| || || ||||||||||| |||||||||||||| | |||| ||||||||||||| ||| |||||||| || || | ||||| || | ||||||||||| | | | | |||| ||| | | ||| | | || | || ||| | | || | | || || ||| | || |
ATAACCGCGGTGAGTTGAAAATATGTGACTTTGGACTCTCTCGTCAATATGGCAGCCTGCTAAAGCCTTACACCCAACCAGTTGTGACTTTGTGGTACAGgtatgttatcagctagcataagatttctcaaatgtcccatacatttttatatcacgatttaacttgacattctcacatgtacaatcatgagtcattgtttgctccttataattacag
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G179097_T07 (Zea mays), 5'ss of exon 2
-----------------------------ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttaccctattcttgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt
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GGATCTGAAGACCTCAAATCTTTTGTTGAATAACCGTGgtgagttaaaaatatgtgattttggactgtctcgtcaatatggaagcccattaaaaccttatactcaactggttgtgactttgtggtacaggtaggtcat-------------------------------------------------------------------------------------------
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G139038_T01 (Zea mays), 5'ss of exon 2
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaa--gtgcgtttttaccctattctt-----gtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt-------------
| || || |||||||| || |||||||| ||||| || |||| |||||||| ||||| | || ||||||||||| |||||||| || | ||||||||||| | | | | |||| | || | | | | | || || || | | |||| ||||| | | | || |
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGGAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagattcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaccaaggactcacctttcttgctccttgtggctacag
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G179097_T04 (Zea mays), 5'ss of exon 2
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaa--gtgcgtttttaccctattcttgtttataaaaaaattaagtggtg----tttacatttacgattgttatttg----aattctgg--tggactttcttgtttttttt--------
| || || |||||||| || |||||||| ||||| || |||| |||||||| ||||| | || ||||||||||| |||||||| || | ||||||||||| | | | | || || | || | | | | || || || | | |||| ||| || | ||||||| | || |
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacag
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA18G01230.1 (Glycine max), 5'ss of exon 3
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttac-cctattcttgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtg-gactttcttgtttttttt
| ||| |||||||||| || || ||||| ||||| |||||||| |||||||| ||||| | || || ||||| || ||||| ||||| ||||||||||||| | | | | | | || ||| | | | || | |||| || | | ||| | || | ||| ||||| |
ATAATAGGGGTGAGTTAAAAATTTGTGATTTTGGATTGGCTCGTCAATATGGGAGCCCATTGAAACCATATACACACCTGGTGGTTACTCTTTGGTACAGgtgagtcatttggtcagacatgccatttttttctgtttattcatgtcactggttaatttgt-atgatattcctcattatagttcaattttattgttgtgaa-
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA05G27820.1 (Glycine max), 5'ss of exon 4
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaa-----agtgcgtttttaccctattcttgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt
| ||| ||||||| | || || ||||| ||||| |||||||| || ||||| || || | ||||| ||||| |||||||| ||||| ||||||||||||| | | | | || || | |||||| | | | || || | | ||| || || | | | | || | ||||| | |||
ATAATAGGGGTGATCTAAAAATTTGTGATTTTGGCTTGGCTCGTCAGTATGGGAGTCCTTTAAAGCCATATACGCATCTGGTGGTTACTCTTTGGTACAGgtgagtgctaatttgcttctatatgctatttgtttctcacgatctttctctgtatgtgtatt-acatttttaagtatagtt---aaaggttttctaatgaattt-
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv01s0010g02550.t01 (Vitis vinifera), 5'ss of exon 1
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttaccctattcttgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt
| ||| |||||||||||||||| ||||| ||||| |||||||||||||| || ||||| | || || ||||||||| |||| ||||| || |||||||||| | || || || || | || || | || || | | | ||| | | | || | || | | || |
ATAATAGGGGTGAGTTGAAGATTTGTGATTTTGGATTGGCTCGGCAATACGGGAGCCCTTTGAAACCATATACTCATTTGGTGGTTACTCTATGGTACAGgtgagctggacttgcacttgatctcttttcctaggcatatgggtgtacactttcttctctcatttaagtaaaattaatgcttgagatctgttcttcatgc
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ06866 (Selaginella moellendorffii), 5'ss of exon 2
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttaccctattcttgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt
|||| || || || |||||||||||||||||||||||||| | |||||||| || || || ||| | || || | |||| || ||| | ||||||||||| ||| || | | | | || || | || | ||
ACAACCGTGGAGATTTGAAGATATGTGACTTTGGTTTGGCAAGACAATATGGTAGTCCTCTTAAGACGTACACACGCATGGTAGTCACGTTATGGTACAGgta---tgcattccttttcagagcacatagatggaagtctgaaacctgttctag----------------------------------------------
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ34843 (Selaginella moellendorffii), 5'ss of exon 2
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttaccctattcttgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt
|||| || || || |||||||||||||||||||||||||| | |||||||| || || || ||| | || || | |||| || ||| | ||||||||||| ||| || | | | | || || | || | ||
ACAACCGTGGAGATTTGAAGATATGTGACTTTGGTTTGGCAAGACAATATGGTAGTCCTCTTAAGACGTACACACGCATGGTCGTCACGTTATGGTACAGgta---tgcattccttttcagagcacatagatggaagtctgaaacttgttctag----------------------------------------------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|164102281|gb|ES200216.1|ES200216EST: GGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAG GGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACA
genomic: GGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcg ... gtttttccagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcgtttttaccctattcttgtttataaaaaaattaagtggtgtttacatttacgattgttatttgaattctggtggactttcttgtttttttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa