Sequence
atgc intronic sequence ATGC exonic sequenceAAGTTTCTAAGGCAGTCTCATTTCATAGTCTGGGATAATAGTGACCTCATTACTCATGAAGTAATGGGTGGCTTGAAGAATGTTTATGCCATTGGTGCAGgtaagatcaggtgtcttaaatggttatctgaataatagtgattcaaagtaaattactggaactggtgatcagaggtcaaagtttatgagctag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G07690.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G07690.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g41590.1 (Oryza sativa), 5'ss of exon 2
AAGTTTCTAAGGCAGTCTCATTTCATAGTCTGGGATAATAGTGACCTCATTACTCATGAAGTAATGGGTGGCTTGAAGAATGTTTATGCCATTGGTGCAGgtaagatcaggtgtcttaaat----ggttatctgaataatagtgattcaaagtaaattactggaactggtgatcagaggtcaaagtttatgagctag---
|| ||||| |||||| ||||||| || || |||||||||||||| ||||| ||||||||||||||||| ||||| ||||| | |||||||||||||| |||||| || |||| | || ||| | || | || ||| | | ||||| | | | | ||| | |
AAATTTCTGAGGCAGCCTCATTTTATTGTGTGGGATAATAGTGATCTCATCACTCATGAAGTAATGGGCGGCTTAAAGAACATATATGCCATTGGTGCTGgtaagttccatggtctcatatctgacgttttatgtccatatcaccttgaaaatttttaactgggaaaataaaaccatcatgtggcttttcttgttgaagc
upper sequence: AT3G07690.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g58740.1 (Oryza sativa), 5'ss of exon 3
AAGTTTCTAAGGCAGTCTCATTTCATAGTCTGGGATAATAGTGACCTCATTACTCATGAAGTAATGGGTGGCTTGAAGAATGTTTATGCCATTGGTGCAGgtaagatcaggtgtcttaaatggttatctgaataatagtg---attcaaagtaaattactggaactggtgat-cagaggtcaaagtttatgagctag---
|| ||| | |||||| ||||||| || || |||||||||||||| |||||||| |||||||| ||||| || ||||| ||||| |||||||||||||| ||||| || | || || || | | || | | ||| ||| | | | ||||| || || | | | |
AAATTTTTGAGGCAGCCTCATTTTATTGTATGGGATAATAGTGATCTCATTACACATGAAGTCATGGGAGGTTTGAAAAATGTGTATGCCATTGGTGCCGgtaatttctatttcctctcttgattgtttttgctatcttctgtaatcacggtagagcatatactgttgtgatatttagcatggggtatgttggaatgcac
upper sequence: AT3G07690.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g71280.1 (Oryza sativa), 5'ss of exon 3
AAGTTTCTAAGGCAGTCTCATTTCATAGTCTGGGATAATAGTGACCTCATTACTCATGAAGTAATGGGTGGCTTGAAGAATGTTTATGCCATTGGTGCAGgtaaga-----tcaggt--gtcttaaatggttatctgaataatagtgattcaaagtaaattactggaactggtgatcagaggtcaaagtttatgagctag--
|||||||| || || | |||||||| ||||||||||| ||||| || |||| ||||| || |||||||| ||||||||||| || ||||| ||||| ||||||| | | | || | || || | |||| || || | | | || || | | | | | | ||
AAGTTTCTGAGACAACCACATTTCATTGTCTGGGATAACAGTGATCTTGTTACACATGAGGTGATGGGTGGTTTGAAGAATGTCTACGCCATCGGTGCTGgtaagaatattttaaatacgttctgtttgttttccaaaatattaactatctttataacagta--aaaataattaactaatcctactaacaaacgaatggagt
upper sequence: AT3G07690.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G090747_T02 (Zea mays), 5'ss of exon 3
AAGTTTCTAAGGCAGTCTCATTTCATAGTCTGGGATAATAGTGACCTCATTACTCATGAAGTAATGGGTGGCTTGAAGAATGTTTATGCCATTGGTGCAGgtaagatc-aggtgtcttaaatggttatctgaataatagtgattcaa--agtaaattactggaactggtg-atcagaggtcaaagtttatgagctag-----
|||||| | |||||| ||||||| || || |||||||| ||||| ||||| ||||||||||| ||||||||||| || ||||| ||||| |||||||| ||||| || | |||||| | | | | ||||| | | | ||| | | || | | ||| ||| |||||
AAGTTTTTGAGGCAGCCTCATTTTATTGTGTGGGATAACAGTGATCTCATCACTCATGAAGTCATGGGTGGCTTAAAAAATGTCTATGCTATTGGTGCTGgtaatttctatttgtctttttcactgtttcctgttttcttgattacactggagagctacatatatcattatattaagaataaaaag--atgggctagaaacc
upper sequence: AT3G07690.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G173195_T01 (Zea mays), 5'ss of exon 2
AAGTTTCTAAGGCAGTCTCATTTCATAGTCTGGGATAATAGTGACCTCATTACTCATGAAGTAATGGGTGGCTTGAAGAATGTTTATGCCATTGGTGCAGgtaagatcaggtgtcttaaatggttatctgaataatagtgattcaaagtaaattact--ggaactggtgatcagaggt--caaagtttatgagctag---
|| || | ||||| ||||||| || || ||||| |||||||| ||||||||||||||||| ||||| ||||| || || || ||||||||||| || |||||| | || || | | | | | | | || | | | || ||| | || | || ||| |
AATTTCTTGAGGCAACCTCATTTTATTGTATGGGACAATAGTGATCTCATTACTCATGAAGTCATGGGCGGCTTAAAAAACGTATATGCCATTGGGGCCGgtaagttatttgatccagaaaaatggaatttccatttgctctcttttcccagttcttatgagatacttggtcaatcattgcatatttgatgtttcatcaa
upper sequence: AT3G07690.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: EFJ25021 (Selaginella moellendorffii), 5'ss of exon 2
AAGTTTCTAAGGCAGTCTCATTTCATAGTCTGGGATAATAGTGACCTCATTACTCATGAAGTAATGGGTGGCTTGAAGAATGTTTATGCCATTGGTGCAGgtaaga--tcaggtgtcttaaatggttatctgaataatagtgattcaaagtaaattactggaactggtgatcagaggtcaaagtttatgagctag
|| || |||||| | ||||| | || ||||| || || |||||| ||||||||||||| ||||| ||||||||||| || || || |||||||| ||| || ||| || ||||| | || | || | || |||| || | || || || | ||| ||
CGTTTCCTGAGGCAGCCGCATTTTGTGGTGTGGGACAACAGCGACCTCGTTACTCATGAAGTCATGGGAGGCTTGAAGAACGTCTACGCAATTGGTGCCGgttagtgttcaagt-tcttagtttcttgtttggaaaacg-------aaagaaatgttctaaaatctttggctcg--ctcacag------------
upper sequence: AT3G07690.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: EFJ15326 (Selaginella moellendorffii), 5'ss of exon 2
AAGTTTCTAAGGCAGTCTCATTTCATAGTCTGGGATAATAGTGACCTCATTACTCATGAAGTAATGGGTGGCTTGAAGAATGTTTATGCCATTGGTGCAGgtaaga--tcaggtgtcttaaatggttatctgaataatagtgattcaaagtaaattactggaactggtgatcagaggtcaaagtttatgagctag
|| || |||||| | ||||| | || ||||| || || |||||| ||||||||||||| ||||| ||||||||||| || || || |||||||| ||| || ||| || ||||| | || | || | || |||| || | || || || | | ||| ||
CGTTTCCTGAGGCAGCCGCATTTTGTGGTGTGGGACAACAGCGACCTCGTTACTCATGAAGTCATGGGAGGCTTGAAGAACGTCTACGCAATTGGTGCCGgttagtcttcaagt-tcttagtttcttgtttggaaaacg-------aaagaaatgttctaaaatctttggttcg--ctcacag------------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|124939640|gb|EL016165.1|EL016165EST: TTTATGCCATTGGTGCAG TGTTTGTTTTGGCGTTTTTGTATTCCACAGGAATGGTGGCTACACTGACTA
genomic: TTTATGCCATTGGTGCAGgtaagatcag ... tatgagctagTGTTTGTTTTGGCGTTTTTGTATTCCACAGGAATGGTGGCTACACTGACTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGTTTCTAAGGCAGTCTCATTTCATAGTCTGGGATAATAGTGACCTCATTACTCATGAAGTAATGGGTGGCTTGAAGAATGTTTATGCCATTGGTGCAGgtaagatcaggtgtcttaaatggttatctgaataatagtgattcaaagtaaattactggaactggtgatcagaggtcaaagtttatgagctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA