Sequence
atgc intronic sequence ATGC exonic sequenceCGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaatgcctcctctgctgctgttgttttgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag
Basic information
species | Glycine max |
transcript | GLYMA13G43680.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 3
CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaatgcctcctctgctgctgttgttttgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag
| ||||| ||||| || || ||||| ||||| | |||||||||||||| ||||||||||||| | | ||| | || ||| | ||| | || | |||| | || | || || | | || | | | | |||| | |
AGGAAGCTCGCGCAGAGGTCGGAGAGGGTGAAGTCCGTGGATCTGCATCCGACAGAGCCATGgtga----------gtgactggttttgtgtaccgaaatgctatgcgaattatgaatgcttcgtctgagccatgactaatcacattatgcta---tctggca--taatgcag--------------------------------------------------------------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 3
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 3
CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaatgcctcctctgctgctgttgttttgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag
| ||| |||| ||| ||||||||||||| |||| ||| ||||||||||| || || |||||||||| | | || | ||| | ||| || | || |||| | | | | | || |||||| | ||| | | || || ||| ||| |||| | | |||| || || | | | | | | || | | ||| | | | |||
AGAAAGTTTGCTCAACGATCAGAGAGAGTCAAATCTGTTGATCTGCATCCTACTGAACCATGgtaatttcaaatttgattctgccatcttgcaacttagtt----atatgttatattttggatgtgttgat--ggaata---acaattttcacagttgctgtgggtagtac---tgtatgtt-tgtacttttattgctgctacaaatgactgacttaataaac---aacacggtgttacag
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 3
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 7
CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaatgcctcctctgctgctgttgttttgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag
|| ||| |||| ||||||||||| ||||| |||| ||| ||||| |||||||||||||||||||||| | | | || || ||| | || || | || | | |||| | | |
CGTAAGTTTGCTCAAAGATCAGAAAGAGTCAAATCTGTAGATCTCCATCCAACAGAGCCATGgtaatttgagcgcattcattcttcattgctttatatatc--gttaaggaaacaagtactaatccatagattgtttcag-----------------------------------------------------------------------------------------------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 3
CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaat----gcctcctctgctgctgttgttttgtttctgaattcaa----tttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag
| || || |||||||||||||||||||| |||| |||||||||||||||| | ||||||||||||| | | || || | | || | ||||| | | ||| |||| | || | | || | || | || | | |
AGGAAACTCGCGCAAAGATCAGAGAGAGTAAAATCTGTGGATCTGCATCCATCTGAGCCATGgtaattataatatgtttggccataatttatgtactttttgtttcaaattttctctgacttgaataggaaatgagacttag--atgtttgctggccattgtgg-------------------------------------------------------------------------------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 3
lower sequence: PP1S243_63V6.1 (Physcomitrella patens), 5'ss of exon 3
CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaatgcctcctctg--ctgctgttgttttgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag
|| || || || ||||| || || ||||||| |||||||| || ||||||||||| ||||||||| ||||| || ||| | | | | || || || |||| | ||| ||| || | || | | | | | ||| || | ||| | | |
CGGAAACTCGCCCAAAGGTCTGAACGAGTGAAGTGTGTGGACCTTCATCCAACAGAACCATGgtaaagcctcttcaagactgatataagtcgggttttgtat---atttct----cgaacttaaaatggttgtttgca-tccttcaattttttgtgtttttgatttgtga-------------------------------------------------------------------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 3
lower sequence: PP1S79_180V6.1 (Physcomitrella patens), 5'ss of exon 3
CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaatgcctcctctgctgctgttgttttgtttctgaattcaatt--tatgatgtgaagct---aacatc-ataat-tgggaatatctgtagtttgtgaggatttagtc----actaataccgatgtttgttgtacaac--tttactgttgg-catcat--ttaattaattgcttgatgcaaacttgttaattcag
|| || || |||||||| || ||| |||| || ||||||||||| ||||||||||||||||||||| | ||| | | | || |||| ||| | |||| || ||||| | ||| | | | ||||| | | | || || ||| | ||| | | | ||||||| || | ||| ||| || || | ||||| || | | | || |||
CGGAAACTCGCGCAAAGGTCTGAGCGAGTTAAGTGTGTGGATCTTCATCCAACAGAGCCATGgtaacgtctc-tttaacgacgtcagacgcaatctgcatttcttcactatgttgcaaagctttgagaatctacagtctgggactcatggcgggttctgtcgatgtgccttggaacttacatgcgtccatgttgtatgttggttggttcttgaacatgatgtttcagcaattgaggaatcttatgattgtcatgcag
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ09529 (Selaginella moellendorffii), 5'ss of exon 1
------CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgta-atgcctcctctgctgctgttgttt-tgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag
||||||||||||||| |||||||| | ||||||||||| ||||| ||||| |||||||||||||| | | | || || || || | || | |
CTCCAGCGCAAGCTTGCGCAACGATCAGAGCGCGTGAAATGTGTAGATCTCCATCCCACAGAGCCATGgtatgtagccattagactaagagcgtgaatgattttctatgcgttcgccag----------------------------------------------------------------------------------------------------------------------------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ36319 (Selaginella moellendorffii), 5'ss of exon 1
------CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgta-atgcctcctctgctgctgttgttt-tgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag
||||||||||||||| |||||||| | ||||||||||| ||||| ||||| |||||||||||||| | | || || || || || | || || |
CTCCAGCGCAAGCTTGCGCAACGATCAGAGCGCGTGAAATGTGTAGATCTCCATCCCACAGAGCCATGgtatgtagccattcgactaagagcgtgaatgattttctatgcattcgccag----------------------------------------------------------------------------------------------------------------------------------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|213613750|gb|DB961247.1|DB961247EST: CAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATG GATTCTGGCGAGTTTATACTCTGGAACTGTCTGCATCTGGAACTACCAATC
genomic: CAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaatgcctc ... gttaattcagGATTCTGGCGAGTTTATACTCTGGAACTGTCTGCATCTGGAACTACCAATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGCAAGCTTGCGCAAAGATCAGAGAGAGTGAAATGTGTGGATCTGCATCCAACAGAGCCATGgtaatgcctcctctgctgctgttgttttgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcag
- - - - - - - AGATCA