Sequence
atgc intronic sequence ATGC exonic sequenceGTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatacacatacatatattaaagcttcccttttcttgaagcaattctgggaactaactcccccttttttctgccatctctctttaattttatatac...
Basic information
species | Glycine max |
transcript | GLYMA17G00650.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00650.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g66490.1 (Oryza sativa), 5'ss of exon 1
GTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatacacatacatatattaaagcttcccttttcttga--agcaattctgggaactaactcccccttttttctgccatctctctttaattttatatac
| || |||||||| || || ||||||||||| ||||| |||||||| ||||| || || |||||||| || || ||||| ||||| |||||||| ||||||| || | ||| | || || | | | | | | |||| | | | | | | | | ||| | | |
ATCGAGTTCTACCTCCGGCGGAAGGTGGAGGGCAAGCGCTTCAACGTCGAGCTCATCACCTTCCTCGACCTCTACCGCTACGACCCCTGGGAGCTCCCCGgtaattagttagttac-----tctccgcctcgatcatatcaatcgattgatttaggaattgag----catctaattaacaagctcgatgggggtgcag----
upper sequence: GLYMA17G00650.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os08g02160.1 (Oryza sativa), 5'ss of exon 1
GTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatacacatacatatattaaagcttcccttttcttgaagcaattctggga-actaactcccccttttttctgccatctctctttaattttatatac
| || |||||||| || || ||||||||||| ||||| |||||| | ||||| || | ||| |||| || || ||||||||||| ||||| |||||||||| | ||| || | || | | | | | ||| || | | | || | | | || | || | | ||
ATCGAGTTCTACCTCCGGCGAAAGGTGGAGGGGAAGCGGTTCAACATCGAGCTCATCGCCTTCGTCGACCTCTACCGCTATGACCCGTGGGATCTTCCCGgta-agatattaatcccatcatcgtgacatgacatgaggtcgagcttagctagcatatgtgctgtacatgagctaagctagctagtggatagctagcatct
upper sequence: GLYMA17G00650.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os05g34600.1 (Oryza sativa), 5'ss of exon 1
GTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatacacatacatatattaaagcttcccttttcttgaagcaattctgggaactaactcccccttttttctgccatctctctttaattttatatac-----
| || |||||||| || || ||||||||||| ||| |||||||| ||||| || || |||||||| || || |||| ||||| |||||||| ||||||| | | | ||| ||| | ||||| || || || ||| || || | ||| | | ||| ||| | || | | |
ATCGAGTTCTACCTCCGGCGGAAGGTGGAGGGCCGGCGGTTCAACGTCGAGCTCATCACCTTCCTCGACCTCTACCGCTTCGACCCATGGGAGCTCCCCGgtacacacat---cacacataattaagctaa-------ttaaattaag-ctgataattagttaa---tttggtgatcgatcgatctgtggttgtgcgtgcgtcag
upper sequence: GLYMA17G00650.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM5G813651_T01 (Zea mays), 5'ss of exon 1
GTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatataca---catacatatattaaag-cttcccttttcttgaagcaattctgggaactaactcccc----cttttttctgccatctctctttaattttatatac
| || |||||||| ||||| ||||||||||| ||||| |||||||| ||||| || || |||||||| || || ||||| ||||| |||||||| || ||| | | | | | | || | | |||| | || | || | || | | | | |||| | | || | | | ||| |
ATCGAGTTCTACCTCCGCCGGAAGGTGGAGGGCAAGCGCTTCAACGTGGAGCTCATCACCTTCCTCGACCTCTACCGCTACGACCCATGGGAGCTCCCAGgtccgtgtccgtctcctgctctcgttttcgtcgtcccctctccccatgccgcgc-acacaccagttactcggatctttctcccaccgtacccttccaatct-------
upper sequence: GLYMA17G00650.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G147867_T01 (Zea mays), 5'ss of exon 1
GTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatataca----------catacatatattaaagcttc--ccttttcttga--agcaattctgggaactaactcccccttttttctgccatctctctttaatt--ttatatac-------------------------
| || |||||||| || || ||||| |||||||| || |||||||| ||||| ||| ||||||| || || || |||| ||||| ||||||||||| |||| || | | | || | ||||||| || | ||||| ||| | || | | |||| || | | | | || |||||| || |||||
ATCGAGTTCTACCTCCGGCGCAAGGTTGAGGGAAAACGCTTCAACGTCGAGCTCATTGCTTTCCTGGACCTCTACCGCTTCGACCCATGGGAGCTTCCAGgtaaccatcaattaatggtagcgcatgcatctggaagcttcgttctctgcttgatcagctagcctcgaattgaactgagtctcgat-cgatcttggctaattaattcgttgtatacaattgctggacggacggcggcgcag
upper sequence: GLYMA17G00650.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G123246_T01 (Zea mays), 5'ss of exon 1
GTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatacacatacatatattaaagcttcccttttcttgaagcaattctgggaactaactcccccttttt------tctgccatctctctttaattttatatac-----
| || |||||||| ||||||| ||||||||| |||||||||||| | ||||| || | || |||| || || ||||| ||||| ||||| || || |||| ||| | || | |||| || | || | ||| |||| || | ||||| | | | | |||| || |
ATCGACTTCTACCTCCGCCGTAGGGTGGAGGGCAAGCGTTTCAACATCGAGCTCATCAACCTCGTCGACCTCTACCGCTACGACCCATGGGATCTCCCTGgtaaccataagc-------cgccgctgccgctaagcatgtgaaccactgctag---ctagctcctgctcataaggggatctgctggca-tatgtgatttcatgcatgtgac
upper sequence: GLYMA17G00650.1 (Glycine max), 5'ss of exon 1
lower sequence: AT2G02450.1 (Arabidopsis thaliana), 5'ss of exon 1
GTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatacacatacatatattaaagcttcccttttcttgaagcaattctgggaactaactccccctttttt-ctgccatctctctttaattttatatac--
| || || ||||||||||| || || || || || || || || || || || || |||||||||||||||||||||||||| |||||||| ||||| |||| ||||||| ||||| | | | | | ||| || | || ||| | | | | | | |||| |||| | |||| ||
ATAGAGTTTTACCTTCGCCGAAAAGTTGAAGGCAAACGCTTTAATGTAGAACTCATCACTTTCCTCGATCTTTATCGCTATGATCCTTGGGAACTTCCTGgtaaatatacattcacataaac--acacataaatcatctcaaactatttggaaatcttaatttctattcatatgttaagatctttcttctctcttat-cactt
upper sequence: GLYMA17G00650.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv12s0035g02020.t01 (Vitis vinifera), 5'ss of exon 2
GTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatacacatacatatattaaagcttcccttttcttgaagcaattctgggaactaactcccccttttttc-tgccatctctctttaattttatatac-------------------------------------
|| |||||||| |||||||||||||| ||||| ||||| ||||||||||| || ||||| | || ||||| |||||||||||||| |||||||| || |||| | | ||||| ||| | ||| ||||| | |||| | | | ||| |||| || | | | | | ||| |||| | |
GTCGAATTCTATCTTCGCCGTAAGGTTGAGGGCAAGCGCTTCAACGTTGAACTCATTACCTCTCTAGATCTCTATCGCTATGACCCCTGGGAGCTGCCTGgtacactttt--ctacatgaattccctcatccattttcatttcttaatttttgatgccctctctaccttcctttatttcctttttttttttttttcttttttatcatcaccatgcattcatctctcctgtatgagtagMapped 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|16105902|gb|BI893633.1|BI893633EST: GCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCG CCTTGGCAGCTATTGGTGAGAAGGAGTGGTACTTCTATGTGCCCAGAGATA
genomic: GCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatac ... ttatgagcagCCTTGGCAGCTATTGGTGAGAAGGAGTGGTACTTCTATGTGCCCAGAGATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGAATTCTACCTTCGCCGTAAGGTGGAGGGAAAGCGTTTCAACGTTGAGCTTATTACTTTCCTCGATCTTTATCGCTATGACCCTTGGGAGCTTCCCGgtatatatacacatacatatattaaagcttcccttttcttgaagcaattctgggaactaactcccccttttttctgccatctctctttaattttatatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccttttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatctct