Sequence
atgc intronic sequence ATGC exonic sequenceAGCCCTGAGGAAATCAGTGCCATGATTCTGACCAAGATGAAGGAAACTGCGGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAGgtaactggaagtctggaacaattcatgactttctgattttgcttttatgccaatatctcacattttcctttcaactgtacag
Basic information
species | Glycine max |
transcript | GLYMA08G02960.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G114793_T01 (Zea mays), 5'ss of exon 3
AGCCCTGAGGAAATCAGTGCCATGATTCTGACCAAGATGAAGGAAACTGCGGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAGgtaactggaagtctggaacaattc--atgactttctgattttgcttttatgccaatatctcacattttcctttcaactgtacag-----------
||||||||||| ||||||||||||||||| |||||||||||| ||||| || |||| |||||| ||||| || ||||||||||| |||||||| || ||| | | ||||||||| || | || | | | ||||| || | | | | ||| | ||| |
AGCCCTGAGGAGATCAGTGCCATGATTCTTGGCAAGATGAAGGATACTGCTGAGGCATACCTTGGCAAGAAGATCAATGATGCTGTCGTCACTGTTCCTGgttagtaa-----ctgaacaattctgctggttacctctagtagttgttatgtaaaaacgtggcggctcacttccttgtgttgtgtttttttgcag
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 3
AGCCCTGAGGAAATCAGTGCCATGATTCTGACCAAGATGAAGGAAACTGCGGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAGgtaactggaagtctggaacaattca-tgactttctgattttgcttttatgccaatatctcacattttcctttcaactgtacag----------
||||||||||| ||||||||||||||||| |||||||||||| ||||| || || | |||||| ||||| || || |||||||| ||||||||||| ||| | | ||| | || | || | || | | | ||||| || || | || ||| | ||| |
AGCCCTGAGGAGATCAGTGCCATGATTCTTGGCAAGATGAAGGATACTGCTGAGGCGTACCTTGGCAAGAAGATCAACGATGCTGTCGTCACTGTCCCTGgttagtaa----ctgaaccattctgctggttacctctagtagttgttatgtaaaaatgtggtggcttacttccttatgttttgttttttgcag
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G28540.1 (Arabidopsis thaliana), 5'ss of exon 3
AGCCCTGAGGAAATCAGTGCCATGATTCTGACCAAGATGAAGGAAACTGCGGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAGgt-aactggaagtctggaaca------attcatgactttctgattttgcttttatg-ccaatatctcacattttcctttcaactgtacag--
|| |||||||| || ||||| ||||||||||| ||||||||||| || || ||||| | |||||| |||||||| || || ||||| |||||||| |||||| | | | || | | | |||| | || | ||| || || | | | | ||| ||| | |
AGTCCTGAGGAGATTAGTGCTATGATTCTGACTAAGATGAAGGAGACAGCTGAAGCCTACCTTGGAAAGAAAATCAAGGACGCTGTTGTCACTGTTCCAGgttagtttgttgttatatatgtggtggagaggtatctttattatctgtatttggtgattgattgtttatttggtgtttttgactttgcgtag
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 3
AGCCCTGAGGAAATCAGTGCCATGATTCTGACCAAGATGAAGGAAACTGCGGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAGgtaactggaagtctggaacaattcatgactttctgattttgcttttatgccaatatctcacat---tttcctttcaactgtacag---------------------
|| |||||||| |||||||||||||||||||| ||||||||||| || || ||||| | |||||| |||||||| || || ||||| |||||||| |||||| | | | | | | || || | | | ||| ||| | | || | | ||| |
AGTCCTGAGGAGATCAGTGCCATGATTCTGACTAAGATGAAGGAGACAGCCGAAGCCTACCTTGGAAAGAAAATCAAGGACGCTGTTGTCACTGTTCCAGgttagtttgttgttaattcgggttttctgttatatatgtagtggagagataaatttcttatctgtattggtgattgattgtttatttggtgtttgactatgcgcag
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 5'ss of exon 3
AGCCCTGAGGAAATCAGTGCCATGATTCTGACCAAGATGAAGGAAACTGCGGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAGgtaactggaagtct----ggaacaattcatgactttctga---------ttttgcttttatgccaatat---ctcacattttcct--ttcaactgtacag-----------------------------
||||||||||| |||||||| |||||| |||| ||||||||||| || || |||||||||||||||||||| || || |||||||| || ||||| || ||| | | | ||| | | || ||| || ||| || || || | ||| | | |||||| | || |||
AGCCCTGAGGAGATCAGTGCAATGATTTTGACTAAGATGAAGGAGACAGCTGAAGCATTCCTTGGGAAGAAGATCAAGGATGCTGTCGTTACTGTGCCCGgtgagtatcactcttctagatataacgtgtgaggttttgaactgcccgcttacactcttcttgaaatgtgaattagcattttgttcattaggatgttttactcatattagctttccatgcaacccgcag
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 5'ss of exon 3
AGCCCTGAGGAAATCAGTGCCATGATTCTGACCAAGATGAAGGAAACTGCGGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAGgtaactggaa---gtctggaacaattcatgactttctgattttgcttttatgccaatat--ctcacattt---tcctttcaactg-tacag
|| |||||||| || ||||| |||||||| || ||||||||||| || |||||||| |||||||| |||| ||| || ||||| || || || || || ||||| || || || || |||| | | || |||| || | || || | ||| | ||| ||||| |||||
AGTCCTGAGGAGATAAGTGCTATGATTCTAACAAAGATGAAGGAGACAGCGGAAGCTTTCCTTGGAAAGACAATCAAGGATGCAGTTGTTACAGTTCCTGgtaatgtaaaacagtttgatttgatggatgaagtaa-attgctgtttttctgttgagatgacttatgtttctattcttacaacttctacagMapped 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|120530199|gb|EH258333.1|EH258333EST: GGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAG CTTACTTCAATGATGCTCAGAGGCAGGCCACCAAAGATGCTGGTGTCATTG
genomic: GGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAGgtaactggaa ... aactgtacagCTTACTTCAATGATGCTCAGAGGCAGGCCACCAAAGATGCTGGTGTCATTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCCCTGAGGAAATCAGTGCCATGATTCTGACCAAGATGAAGGAAACTGCGGAAGCATTCCTTGGGAAGAAAATTAATGATGCTGTGGTCACTGTCCCAGgtaactggaagtctggaacaattcatgactttctgattttgcttttatgccaatatctcacattttcctttcaactgtacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG