Sequence
atgc intronic sequence ATGC exonic sequenceGTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttcttgatacatagtgagtgttcttttgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g17980.2 (Oryza sativa), 5'ss of exon 4
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttcttgatac-atagtg--agtgttcttttgcag
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GTATAATGTAAAGCTTGCTGACTTTGGTTTGAGTAACGTCATGCATGATGGCCATTTTTTGAAGACAAGCTGTGGGAGTCCAAACTATGCTGCTCCAGAGgttttttttttttttt-ttgtatcactgtgggactatatcttcttgctcctttgcatgcaatattttttcttattatagtattatggttcctttgcag
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os08g37800.1 (Oryza sativa), 5'ss of exon 4
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttcttgatacatagtgagtgttcttttgcag
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GTATAACGTAAAGCTTGCTGACTTTGGTTTGAGTAATGTCATGCATGATGGCCATTTTTTAAAGACAAGCTGCGGGAGTCCGAATTATGCTGCTCCAGAGgtattttttttgtatcactgtgagactat--atct---tcttgctcctttacatgcaatattttttcttattatagtattatggtccctttgcag
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: AT3G01090.2 (Arabidopsis thaliana), 5'ss of exon 4
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttc--ttgatacatagtgagtgttcttttgcag
| |||||||| |||| |||||||| |||||||| | |||| ||||| |||||| ||||||| || ||||| ||||| || ||||| |||||||||||| | ||| | | | | || | || | | ||| || | ||| | || | || | ||||
ATGCAATGTAAAGATTGCTGATTTTGGCCTGAGCAACATAATGCGAGATGGTCATTTTTTGAAGACAAGTTGTGGAAGTCCAAATTATGCCGCTCCAGAGgtaagtgcttcagccctcaggtatctgaggaatactataattaggcttgtttcaaatgataggttatagtcgagatctataaattgtttcag-----
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: AT5G39440.1 (Arabidopsis thaliana), 5'ss of exon 3
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttat---tgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttcttgatacatagtgagtgttcttttgcag
| || |||| ||| || ||||| |||| ||||||||||||||||| |||||| | |||||||| ||||| || || || ||||||||||||||||||| | | | | || ||| | | ||| | | ||| | | || || | | || | | | || | ||
ATGCAACATAAAGATTGTTGACTTTGGATTGAGTAATGTCATGCATGATGGTCATTTTTTAAAGACTAGTTGTGGAAGCCCTAATTATGCTGCTCCAGAGgtataagagattaacatattcttcatttttatttcatgaatttggatatatatttgaagtatcaa--ttactcacacctg--aaacttatttatatag
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: Vv08s0040g00720.t01 (Vitis vinifera), 5'ss of exon 5
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtg-agtttgctgatctatttttttttcctttttagaacaccatgtttcttgatacatagtgagtgttcttttgcag
||||| ||| |||| || ||||| || |||||||| |||| |||||| |||||||| || || |||||||| ||||| || ||||||||||| ||||||| || ||| | | | |||| || | || | | | ||| | || |||| | | | ||| |||||
ACGCAATGTCAAAGTTGCAGACTTTGGACTCAGCAATGTGATGCGTGATGGTCATTTTCTCAAAACAAGCTGTGGAAGTCCAAATTATGCTGCTCCTGAGgtat--gggtcaacttgttatataagttgccaatgaacttgt-----------gaataattatgctctgtg-tacaatgaaatactgcttgtgcag
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: PP1S28_12V6.1 (Physcomitrella patens), 5'ss of exon 3
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtatt---ttattctt-attgctgtgagtttgctgatctatttttttttcctttt-tagaacaccatgtttct-tgatacatagtgagtgttcttttgcag----------------------------------------------------------------
|| ||| || || |||| |||||||| | |||||| ||| || || ||||| || || ||||||||||| ||||| || ||||||||||||||||| || ||| | | ||||| || |||| | | || || || | | | | ||||||||| | | | || ||| ||
GTCTAACGTCAAGATTGCTGATTTTGGGTTATCCAATGTTATGAGGGACGGTCATTTCCTCAAAACTAGCTGTGGAAGTCCAAATTATGCTGCTCCAGAGgttttgctctatgcctgattgccttg--tttgacactgttttaattcgtcatgtgattgtgtcacatgtttctgttttctgtgttgggtgcctgaaccaagttgtaggttttctgtgcccggacacactcctgcttgttgactgttgatattgttgaacatgcag
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: EFJ35371 (Selaginella moellendorffii), 5'ss of exon 3
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttcttgatacatagtgagtgttcttttgcag
|| ||||| || ||||||| ||||| |||| ||| |||||| ||||| || |||||||| || |||||||| ||||| |||||||| |||||||||||| | | | | | | | | | ||| |||
GTGCAATGTGAAGATTGCGGACTTTGGCTTGAGTAATATCATGCGAGATGGACACTTTCTGAAAACGAGCTGTGGAAGTCCAAACTATGCCGCTCCAGAGgtaagcttcgactttcttttttcctctagaaagccttttcctttcag------------------------------------------------
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: EFJ16445 (Selaginella moellendorffii), 5'ss of exon 3
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttcttgatacatagtgagtgttcttttgcag
| | ||| || | ||||||||||| |||||||| | |||| || || || |||||||| || |||||||| |||||||||||||||||||||||||| | ||| | | ||||| | || | | ||| | | ||||| || || ||
ATGCAGTGTCAAGATAGCGGATTTTGGCCTGAGCAACATTATGCGAGACGGACACTTTCTGAAAACAAGCTGTGGAAGTCCGAACTATGCTGCTCCAGAGgtcagta-----tatcagtataagttttgttataggctcgtcattct--------aagttgtctttctcaat-cacag-----------------
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: EFJ10631 (Selaginella moellendorffii), 5'ss of exon 4
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttcttgatacatagtgagtgttcttttgcag
|| ||||| || ||||||| ||||| | || ||| |||||| ||||| || |||||||| || |||||||| ||||| |||||||| |||||||||||| | | ||| | ||| | | | |||||||||
GTGCAATGTGAAGATTGCGGACTTTGGCTTAAGTAATATCATGCGAGATGGACACTTTCTGAAAACGAGCTGTGGAAGTCCAAACTATGCCGCTCCAGAGgtaagct-tcgacattctt-----ttttcctctagaaagccttttcctttcag------------------------------------------
upper sequence: GRMZM2G107867_T04 (Zea mays), 5'ss of exon 3
lower sequence: EFJ17922 (Selaginella moellendorffii), 5'ss of exon 3
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttcttgatacatagtgagtgttcttttgcag
| | ||| || | ||||||||||| |||||||| | |||| || || || |||||||| || |||||||| |||||||||||||||||||||||||| | ||| | ||||| | || | | ||| | | ||||| || || ||
ATGCAGTGTCAAGATCGCGGATTTTGGCCTGAGCAACATTATGCGAGACGGTCACTTTCTGAAAACAAGCTGTGGAAGTCCGAACTATGCTGCTCCAGAGgtcagta-----tatcaggataagttttgtcataggctcgtcattct--------aagttgtctttctcaat-cacag-----------------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|211440538|gb|FL230375.1|FL230375EST: GCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAG GTAATATCTGGTAAACTATATGCTGGACCTGAGGTCGATGTATGGAGTTGC
genomic: GCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttatt ... tcttttgcagGTAATATCTGGTAAACTATATGCTGGACCTGAGGTCGATGTATGGAGTTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATAATGTAAAACTTGCGGATTTTGGTCTGAGCAATGTCATGCATGATGGCCATTTTCTGAAGACTAGCTGTGGGAGTCCGAACTATGCTGCTCCAGAGgtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacaccatgtttcttgatacatagtgagtgttcttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT