Sequence
atgc intronic sequence ATGC exonic sequenceCTTTCAGGCTGAGATCAACCAGCTGCTCTCACTCATCATCAACACCTTCTATTCCAACAAGGAGATCTTCCTCCGGGAGCTCATTTCCAACTCTTCCGATgtaagtccgccccgttaagtcgaagtctgggtgcatcttagtgtgttagtgtttgggcggtaacttgtgctatggtgtgattacacactgcggttaatac...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G069651_T04 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os09g30412.1 (Oryza sativa), 5'ss of exon 1
CTTTCAGGCTGAGATCAACCAGCTGCTCTCACTCATCATCAACACCTTCTATTCCAACAAGGAGATCTTCCTCCGGGAGCTCATTTCCAACTCTTCCGATgtaagtccgccccgttaagtcga--agtctgggtgcatcttagtgtgttagtgtttgggcggtaacttgtgctatggtgtgattacacactgcggttaatac
||| ||||| ||||||||||||||||| || |||||||||||||||||||| ||||||||||||||||||||||| |||||||| |||||||| |||||||||||| || ||| | | || | || | | | | || | | | || || || ||| || || | || | |
CTTCCAGGCCGAGATCAACCAGCTGCTGTCCCTCATCATCAACACCTTCTACTCCAACAAGGAGATCTTCCTCCGCGAGCTCATCTCCAACTCCTCCGATgtaagtttgcgccgcccccgaaattaatcccctctcgtcgaggaatcgaaatcggtgcttgcttatgtgctctttgctgttgttgtacgcgtcgatctgt--
upper sequence: GRMZM2G069651_T04 (Zea mays), 5'ss of exon 1
lower sequence: EFJ25533 (Selaginella moellendorffii), 5'ss of exon 1
CTTTCAGGCTGAGATCAACCAGCTGCTCTCACTCATCATCAACACCTTCTATTCCAACAAGGAGATCTTCCTCCGGGAGCTCATTTCCAACTCTTCCGATgtaagtccgc----cccgttaagtcgaagtctgggtgc-atcttagt--gtgttagtgtttgggcggtaacttgt-gctatggtgtgattacacactgcggttaatac
||| ||||| |||||||||||||| ||| |||||||||||||||||||| |||||||||||||||| | ||||||||||| ||| | || ||||| ||| | |||| | ||| | | ||| || | | | || | || | | | || | | | || | | ||||| || |
CTTCCAGGCGGAGATCAACCAGCTTCTCAGTCTCATCATCAACACCTTCTACAGCAACAAGGAGATCTTCTTGCGGGAGCTCATCAGCAATGCCTCGGATgtgagtgttagatgctcgttcgg-cgatattttactgctattctcatcgatctttgccttctttctgcgatttctcaccgatctttgcattctttctgcgatttccag
upper sequence: GRMZM2G069651_T04 (Zea mays), 5'ss of exon 1
lower sequence: EFJ29061 (Selaginella moellendorffii), 5'ss of exon 1
CTTTCAGGCTGAGATCAACCAGCTGCTCTCACTCATCATCAACACCTTCTATTCCAACAAGGAGATCTTCCTCCGGGAGCTCATTTCCAACTCTTCCGATgtaagtccgccccgttaagtcgaagtctgggtgcatcttagtgtgttagtgtttgggcggtaacttgtgctatggtgtgattacacactgcggttaatac
|| |||||||||||||||||||| ||| |||||||||||||| ||||| |||||||||||| ||| | ||||||||||| ||| | || ||||| ||| || | | | || | | | | | || | || | || || ||||| | ||
GTTCCAGGCTGAGATCAACCAGCTTCTCAGTCTCATCATCAACACTTTCTACAGCAACAAGGAGATTTTCTTGCGGGAGCTCATCAGCAATGCCTCGGATgtgagt--atttcgcctccttgttcttccagttcttgtcaaactctttcttcttct----catgctgcgccgc--tgtgactccag--------------
upper sequence: GRMZM2G069651_T04 (Zea mays), 5'ss of exon 1
lower sequence: EFJ22362 (Selaginella moellendorffii), 5'ss of exon 1
CTTTCAGGCTGAGATCAACCAGCTGCTCTCACTCATCATCAACACCTTCTATTCCAACAAGGAGATCTTCCTCCGGGAGCTCATTTCCAACTCTTCCGATgtaagtccgc----cccgttaagtcgaagtctgggtgca--tcttagtg-tgttagtgtttgggcggtaacttgt-gctatggtgtgattacacactgcggttaatac
||| ||||| |||||||||||||| ||| |||||||||||||||||||| |||||||||||||||| | ||||||||||| ||| | || ||||| ||| | |||| | ||| | | ||| ||| | | | || | || | | | || | | | || | | ||||| || |
CTTCCAGGCGGAGATCAACCAGCTTCTCAGTCTCATCATCAACACCTTCTACAGCAACAAGGAGATCTTCTTGCGGGAGCTCATCAGCAATGCCTCGGATgtgagtgttagatgctcgttcgg-cgatatttcactgcgattctcatcgatctttgccttctttctgcgatttctcaccgatctttgcgttctttctgcgatttccag
upper sequence: GRMZM2G069651_T04 (Zea mays), 5'ss of exon 1
lower sequence: EFJ17594 (Selaginella moellendorffii), 5'ss of exon 1
CTTTCAGGCTGAGATCAACCAGCTGCTCTCACTCATCATCAACACCTTCTATTCCAACAAGGAGATCTTCCTCCGGGAGCTCATTTCCAACTCTTCCGATgtaagtccgccccgttaagtcgaagtctgggtgcatcttagtgtgttagtgtttgggcggtaacttgtgctatggtgtgattacacactgcggttaatac
|| |||||||||||||||||||| ||| |||||||||||||| ||||| |||||||||||| ||| | ||||||||||| ||| | || ||||| ||| || ||| | || | | | | | || | || | || ||| ||||| | ||
GTTCCAGGCTGAGATCAACCAGCTTCTCAGTCTCATCATCAACACTTTCTACAGCAACAAGGAGATTTTCTTGCGGGAGCTCATCAGCAATGCCTCGGATgtgagt--atttcgcc---tcgttcttccagttcttgtcaaactctttcttcttct----catgctgcgctgc--tgtgactccag--------------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|211125669|gb|FL192426.1|FL192426EST: ATTCCAACAAGGAGATCTTCCTCCGGGAGCTCATTTCCAACTCTTCCGAT CCGGAGCTGTTCATCCACATTGTACCAGACAAGGCTTCGAACACGCTCTCC
genomic: ATTCCAACAAGGAGATCTTCCTCCGGGAGCTCATTTCCAACTCTTCCGATgtaagtccgc ... cgatgcgcagCCGGAGCTGTTCATCCACATTGTACCAGACAAGGCTTCGAACACGCTCTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTTCAGGCTGAGATCAACCAGCTGCTCTCACTCATCATCAACACCTTCTATTCCAACAAGGAGATCTTCCTCCGGGAGCTCATTTCCAACTCTTCCGATgtaagtccgccccgttaagtcgaagtctgggtgcatcttagtgtgttagtgtttgggcggtaacttgtgctatggtgtgattacacactgcggttaatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccgcccc