Sequence
atgc intronic sequence ATGC exonic sequenceGGGAGGAAGAGTTGCAGAAGAGCTTATCTTTGGCCAGGATTATGTCACAACTGGAGCAAGTAGTGATCTCCACACTGCTACTGAGCTTGCCCAATACATGgtaattttctgctcccctgtattgtgtcaagtgcagtcttgcatctgctaaactagagaccacttttataaaaaaattatgcttgtataatttttctgtt...
Basic information
species | Glycine max |
transcript | GLYMA14G29810.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G29810.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g43150.2 (Oryza sativa), 5'ss of exon 6
GGGAGGAAGAGTTGCAGAAGAGCTTATCTTTGGCCAGGATTATGTCACAACTGGAGCAAGTAGTGATCTCCACACTGCTACTGAGCTTGCCCAATACATGgtaatt-ttctgctcccctgtattgtgtcaagtgcagtcttgcatctgctaaactagagaccacttttataaaaaaattatgcttgtataatttttctgtt
||| || || |||||||| ||||| || ||||| | || |||| |||||||| ||||| | |||||| || ||||| || |||||||| || |||||||||||| || | | ||| | | || || || || | ||| |||| || | ||
GGGTGGCAGGGTTGCAGAGGAGCTCATTTTTGGGGAAGACAATGTTACAACTGGGGCAAGAAATGATCTTCATACTGCAACAGAGCTTGCTCAGTACATGgtaattattttattacccatgaaattttcctgttaggtgtttaaatagcttaact---gagttgctgcgtag-----------------------------
upper sequence: GLYMA14G29810.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G004040_T01 (Zea mays), 5'ss of exon 14
GGGAGGAAGAGTTGCAGAAGAGCTTATCTTTGGCCAGGATTATGTCACAACTGGAGCAAGTAGTGATCTCCACACTGCTACTGAGCTTGCCCAATACATGgtaattttctgctcccctgtattgtgtcaagtgcagtcttgcatctgctaaactagagacc--acttttataaaaaaattatgcttgtataatttttctgtt
||| || || ||||| |||||||| |||||||| | || |||| |||||||| ||||| | ||| || |||||||| || ||||||||||| |||||||| ||| | | || | ||| ||| || | || |||| | | |||| | | |
GGGTGGGAGGGTTGCTGAAGAGCTGATCTTTGGGGAAGACAATGTTACAACTGGGGCAAGAAATGACCTTCACACTGCAACGGAGCTTGCCCAGTACATGgtgattacttcaactgttgggatttgttttgtgtg---ttagacatgttaaatggctcatctaacttcgactctacag------------------------
upper sequence: GLYMA14G29810.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G156069_T01 (Zea mays), 5'ss of exon 14
GGGAGGAAGAGTTGCAGAAGAGCTTATCTTTGGCCAGGATTATGTCACAACTGGAGCAAGTAGTGATCTCCACACTGCTACTGAGCTTGCCCAATACATGgtaattttctgctcccctgtattgtgtcaagtgcagtcttgcatctgctaaactagagaccacttttataaaaaaattatgcttgtataatttttctgtt
||| || || ||||| |||||||| || ||||| | || |||| |||||||| || || | ||| || |||||||| || ||||||||||| |||||||||||| | || | ||| | | | || || | || |||| | || | || |||| | || |
GGGTGGGAGGGTTGCTGAAGAGCTGATATTTGGGGAAGACAATGTTACAACTGGGGCGAGAAATGACCTTCACACTGCAACAGAGCTTGCCCAGTACATGgtaattacttcgtc-----tgttgggaaatattttgtattagacgtgttaaat----ggtcatct---------aactatgactctacag----------
upper sequence: GLYMA14G29810.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 14
GGGAGGAAGAGTTGCAGAAGAGCTTATCTTTGGCCAGGATTATGTCACAACTGGAGCAAGTAGTGATCT-CCACACTGCTACTGAGCTTGCCCAATACATGgtaattttctgctcccctgt---attgtgtcaagtgcagtcttgcatctgctaaactagagaccacttttataaa------aaaattatgcttgtataatttttctgtt-------------------------------------------------------------------------------------------
|||||||||||||||||| ||||| ||||||||| ||| || | || |||||||| ||||| ||||| |||| || ||||| ||||| ||||||||||||| | || | || |||| || | | | ||| | ||| || | | | ||| | | ||| | || |
GGGAGGAAGAGTTGCAGAGGAGCTCATCTTTGGCTTGGACCATATTACCACTGGAGCGAGTAGCGATCTGTCACAG-GCCACTGAACTTGCACAATACATGgtaacctcatgtacatgtgcttaattgcttctttttttctggtttatcaaaagagttagcctttggttcttttagttttctggaatgaggtttgagggacttagtctctgagatccttaaggtgaacttacaagttaatgcgagaagatggatcttacctcttgttgtagttgtagtaatgcttttctttttaatggaag
upper sequence: GLYMA14G29810.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv16s0050g02630.t01 (Vitis vinifera), 5'ss of exon 14
GGGAGGAAGAGTTGCAGAAGAGCTTATCTTTGGCCAGGATTATGTCACAACTGGAGCAAGTAGTGATCTCCACACTGCTACTGAGCTTGCCCAATACATGgtaattttctgctcccctgtattgtgtcaagtgcagtc-ttgcatctgctaaactagagaccacttttataaaaaaattatgcttgtataatttttctgtt
|||||||||||| |||||||||||||||||||| || || |||||||||| ||||||||||||||||| |||| || || |||||||||||||| ||||||||||| | || | || | || ||| | | | || | | | | || | | | | | | |||
GGGAGGAAGAGTAGCAGAAGAGCTTATCTTTGGTCAAGACCATGTCACAACCGGAGCAAGTAGTGATCTAAACACAGCCACAGAGCTTGCCCAATATATGgtaattttattttctcagagtccatgcatttaataatcattgattattcccaatatgtggaaaagatggtatatcccaaaaggagaaagactcactctaa-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|7692496|gb|AW760601.1|AW760601EST: CTGGAGCAAGTAGTGATCTCCACACTGCTACTGAGCTTGCCCAATACATG GTATCGAATTGTGGGATGAGTGATGCCATCGGGCCAGTT
genomic: CTGGAGCAAGTAGTGATCTCCACACTGCTACTGAGCTTGCCCAATACATGgtaattttct ... tatgcacaagGTATCGAATTGTGGGATGAGTGATGCAATCGGGCCAGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGAGGAAGAGTTGCAGAAGAGCTTATCTTTGGCCAGGATTATGTCACAACTGGAGCAAGTAGTGATCTCCACACTGCTACTGAGCTTGCCCAATACATGgtaattttctgctcccctgtattgtgtcaagtgcagtcttgcatctgctaaactagagaccacttttataaaaaaattatgcttgtataatttttctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaaaa