Sequence
atgc intronic sequence ATGC exonic sequenceTGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgtttgttctgattgatcgatccgtttccctttgttatagaccccggatggttgtgatttcgttgttg...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G056393_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os03g36780.1 (Oryza sativa), 5'ss of exon 1
TGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgtttgttctgattg-atcgatccgtttccctttgttatagaccccggatggttgtgatttcgttgttg
|||||||| || || |||||||||||||||||||| |||||||| ||||| |||||||| ||||| ||||| ||||||||||||||||| | |||||||||| | ||| | | ||| ||| || | | | ||| | | || ||||| || ||| || | ||| | | | |
CGACGGCGTGGGCGCAAAGATGGACTCCATGGACCTCGAGCGCGAGAAGGGCATCACCATCCAGTCCGCTGCAACCTACTGCACCTGGAATGGATACCAGgtccatcaaatttctgcccgtctcactt-atctttctattcgattcgtatacatccgattgcctgctagatcaccatgttttggctatcgaaaggaaactt
upper sequence: GRMZM2G056393_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA11G16460.1 (Glycine max), 5'ss of exon 1
TGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgtttgttctgattgatcgatccgtttccctttgttatagaccccggatggttgtgatttcgttgttg----
||||| ||||| || |||||||||||||||||| | ||| | || ||||| |||||||||||||||||||||||||||||||| ||||| ||||| |||| | || | |||| | | || | | | | || || || | | ||| | || | || |||| | | ||
GGACGGAGTCGGCGCCAAGATGGACTCCATGGACTTGGAGAGGGAGAAGGGAATCACCATTCAGTCTGCTGCCACCTACTGCACGTGGAAAGATTATAAGgtttggttttgtttgttgaat-tcaactagtgaaataatgttgggagagttat---tgtggtgttggttcagttctaattgaatttgaatttaggtcctgtttg
upper sequence: GRMZM2G056393_T01 (Zea mays), 5'ss of exon 1
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 1
TGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgtttgttctgattgatcgatccgtttccctttgttatagaccccggatggttgtgatttcgttgttg
|| |||||||| ||||| ||||| ||||||||| |||| || || || || |||||||| || || || || |||||||| || |||||||||||| |||| | | | || ||||| || || | || | || || | |||| || ||
AGATGGCGTCGGCGCTAAAATGGATTCCATGGACTTAGAACGAGAGAAAGGTATCACCATCCAATCAGCCGCTACCTACTGTACTTGGAAGGATTACAAGgtgagcagatagatagatagaga-tctttcttaattaatcctattgaattgagc--------tttgaaatgaacag------------------------
upper sequence: GRMZM2G056393_T01 (Zea mays), 5'ss of exon 1
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 5'ss of exon 1
TGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgttt----gttctgattgatc----gatccgtttccctttgttatagaccccggatggtt--gtgatttcgttg--ttg---------------------------------
|| |||||||| ||||| |||||||| |||||| | ||||| || || || ||||| || ||||| || || || ||||| || |||||||||||| |||| | | || || || | || |||| ||| | ||| ||| || | | | || || || || ||| |||
AGATGGCGTCGGCGCTAAAATGGACTCTATGGACTTGGAGCGAGAGAAAGGTATCACTATCCAGTCAGCCGCTACTTACTGTACTTGGAAGGATTACAAGgtgaggagatagaaaaaaagatcttccttgtggattctgtgattctaatttcttctcagattcgtcaaaattggccttggttgtttaattgtgtagtaatcctattgcattgagctttgaaatttgttgttatgattgttgtcag
upper sequence: GRMZM2G056393_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 5'ss of exon 1
TGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgtttgttctgattgatcgatccgtttccctttgttatagaccccggatggttgtgatttcgttgttg----
|| || || ||||| |||||||| |||||||| |||| | || ||||||||||| |||||||||||||| |||||||| || ||||| ||||| ||||| || || || | | || ||| | || ||| | || | | | | | ||| | || ||| || ||| |
CGATGGAGTAGGTGCGAAGATGGATTCCATGGATTTAGAAAGAGAGAAGGGGATCACGATTCAGTCTGCTGCTACCTACTGTACTTGGAAAGATTATCAGgtgtgtgtggattcagttggt-tccgtttctatggttgat--gacaaaatg-taggaaaaaggaaagaaaagaaattgttgaattttgacttagtttgtactaa
upper sequence: GRMZM2G056393_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ36205 (Selaginella moellendorffii), 5'ss of exon 1
TGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgtttgttctgattgatcgatccgtttccctttgttatagaccccggatggttgtgatttcgttgttg
|| |||||||| || |||||||| ||||||||||| |||||||| || ||||||||||| ||||| || || || ||||| ||| || ||||||| | | | || ||| | || | | | | || || |
GGATGGCGTCGGCGCCAAGATGGATTCCATGGACCTGGAGCGCGAGAAAGGGATCACCATCCAGTCCGCAGCGACGCACTGCGTTTGGGGTGACCACCAGgtgagatggacgtttttcattcccttacaaagtttcgactttgtttctttctag----------------------------------------------
upper sequence: GRMZM2G056393_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ18610 (Selaginella moellendorffii), 5'ss of exon 1
TGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgtttgttctgattgatcgatccgtttccctttgttatagaccccggatggttgtgatttcgttgttg
|| |||||||| || |||||||| ||||||||||| |||||||| || ||||||||||| ||||| || || || ||||| ||| || ||||||| | | | || ||| | || | | | || || || |
GGATGGCGTCGGCGCCAAGATGGATTCCATGGACCTGGAGCGCGAGAAAGGGATCACCATCCAGTCCGCAGCTACGCACTGCGTTTGGGGTGACCACCAGgtgagatggacgtttttcattcccttacaaagtttcaattttgtttctttctag----------------------------------------------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|31353864|gb|CD438221.1|CD438221EST: GGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAG ATTAATATTATTGATACTCCAGGTCACGTGGATTTCACCATTGAGGTTGAA
genomic: GGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgt ... ttaaatgcagATTAATATTATTGATACTCCAGGTCACGTGGATTTCACCATTGAGGTTGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGACGGCGTCGGTGCTAAGATGGACTCCATGGACCTAGAGCGCGAAAAGGGGATCACCATTCAGTCTGCTGCCACCTACTGCACCTGGAAGGATTACCAGgtccgtttgtttttgctcagcctctctttatttgtttgttctgattgatcgatccgtttccctttgttatagaccccggatggttgtgatttcgttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG