Sequence
atgc intronic sequence ATGC exonic sequenceTCCAGAGTTGAGAAGGTGTTGGAAGCAGTTCATATTGCAGCTAATAAAAACACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgtacaagctctttgttgcttctattataatttttatgttttaattcacttacatgatttctcttgtggaattcag
Basic information
species | Glycine max |
transcript | GLYMA18G27710.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os03g52840.3 (Oryza sativa), 5'ss of exon 10
TCCAGAGTTGAGAAGGTGTTGGAAGCAGTTCATATTGCAGCTAATAAAAACACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgtacaagct----ctttgttgcttctattataatttttatgttttaattcacttacatgatttctcttgtggaattcag----------
|| ||||| |||||||| || ||| || || |||||||| || || ||||| |||||||| ||||| || || ||||| || || |||||||||||||||| || || || ||| | || | || |||||| || ||| | || || || || | | | ||
TCAAGAGTGGAGAAGGTTTTAGAAAACGTGCACATTGCAGCAAACAAGAACACAGTTCCTGGTGATGTTTCAGCTATGGTACCAGGAGGCATCAGGATGGgtaaaatctgcccctatgtggttttttttttaatttac---ttaaaatagatttgcaaaatctcaat-atcagctccatgatcatgcag
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G135283_T02 (Zea mays), 5'ss of exon 12
TCCAGAGTTGAGAAGGTGTTGGAAGCAGTTCATATTGCAGCTAATAAAAACACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgtacaagctctttgt------tgcttctat--tataatttttatgttttaattcacttacatgatttctcttgtggaattcag
|| || || |||||||| || ||| || ||||||||||| || || ||||| |||||||| ||||| || || ||||| || || ||||||||||||||||| | | || || || ||| | || | || || || || | | | || | |||| || || |||
TCAAGGGTGGAGAAGGTTTTAGAAAGTGTGCATATTGCAGCAAACAAGAACACAGTTCCTGGTGATGTTTCAGCTATGGTGCCAGGAGGCATCAGGATGGgtacgatattttgtcatagaatgtttgtatactttattcttaattttgcaaattcttaatattagctctcccgtc--atgcag
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv00s0211g00120.t01 (Vitis vinifera), 5'ss of exon 13
TCCAGAGTTGAGAAGGTGTTGGAAGCAGTTCATATTGCAGCTAATAAAAACACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgtacaagctctttgttgcttctattataatttttatgttttaattca---cttacatgatttctcttgtggaattcag
||||||||||| |||||||||||| | ||||||||||||||||| || ||||| ||||||||||||||||| ||||||||||||||||||||||||||||||| | | ||||||| | || | || | |||| ||| | |||| |||| | | | | |||||
TCCAGAGTTGAAAAGGTGTTGGAATCTGTTCATATTGCAGCTAACAAGAACACCGTTCCTGGAGATGTGTCGGCCATGGTTCCTGGTGGCATCAGGATGGgtagag--tttttgttgatcacatggtgcttgtgtgatttttatttaagttttacttgatctgctctcttgc-ttcag
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv00s0211g00070.t01 (Vitis vinifera), 5'ss of exon 13
TCCAGAGTTGAGAAGGTGTTGGAAGCAGTTCATATTGCAGCTAATAAAAACACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgtacaagctctttgttgcttctattataatttt-tatgttttaattca---cttacatgatttctcttgtggaattcag
||||||||||| |||||||| ||| | |||||||||| |||||| |||||||||||||||||||||||||| |||||||||||| |||||||||||||||||| | | ||||||| | || | || | | ||||| || | ||| |||| | | | |||||
TCCAGAGTTGAAAAGGTGTTAGAATCTGTTCATATTGTAGCTAACAAAAACACTGTTCCTGGAGATGTGTCGGCCATGGTTCCTAGTGGCATCAGGATGGgtagag--tttttgttgatcacatggtgcttgtgtgatttttattttaagttttatttgatccgctctcttgc-ttcag
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv00s0211g00090.t01 (Vitis vinifera), 5'ss of exon 5
TCCAGAGTTGAGAAGGTGTTGGAAGCAGTTCATATTGCAGCTAATAAAAACACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgtacaagctctttgttgcttctattataatttt-tatgttttaattca---cttacatgatttctcttgtggaattcag
||||||||||| |||||||||||| | |||||||||| |||||| |||||||| ||||||||||||||||| |||||||||||| |||||||||||||||||| | | ||||||| | || | || | | ||||| || | |||| |||| | | | |||||
TCCAGAGTTGAAAAGGTGTTGGAATCTGTTCATATTGTAGCTAACAAAAACACCGTTCCTGGAGATGTGTCGGCCATGGTTCCTAGTGGCATCAGGATGGgtagag--tttttgttgatcacatggtgcttgtgtgatttttattttaagttttacttgatccgctctcttgt-ttcag
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 14
lower sequence: PP1S21_270V6.1 (Physcomitrella patens), 5'ss of exon 12
TCCAGAGTTGAGAAGGTGTTGGAAGCAGTTCATATTGCAGCTAATAAAAACACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgtacaagctctttgttgcttctatt--ataatttttatgttttaattcacttacatgatttctcttgtggaat---tcag--------------------
|| || || ||| ||| |||| | || |||||||| || || ||||||||||| |||||||||||||| |||| ||||| || ||| | ||||||| | || | | || | || | ||| || | | ||| | ||| ||| | |
TCAAGGGTGGAGCGAGTGATGGAGCTTGCCCACATTGCAGCAAACAAGAACACTGTTCCAGGAGATGTGTCTGCATTGGTACCTGGAGGTATCCGTATGGgtaagtgtaaacgaagctctcgaatcagtagtcttcttatttgaaaacgatctagagataaaaccagtgaaatgacttaatgcattaatgtaatcttgta
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 14
lower sequence: PP1S79_54V6.1 (Physcomitrella patens), 5'ss of exon 13
TCCAGAGTTGAGAAGGTGTTGGAAGCAGTTCATATTGCAGCTAATAAAAACACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgta-----caagctctttgttgcttctattataatttttatgttttaattcacttacatgatttctcttgtggaattcag---------------------
|| ||||| ||| ||| |||| | ||||||||| || || ||||||||||||||||||||||| ||||| | || ||||| ||||| | ||||||| ||| | || | | |||||| || | || | || | | | | | | ||
TCTAGAGTGGAGCGAGTGATGGAGCTTGCTCATATTGCGGCAAACAAAAACACTGTTCCTGGAGATGTATCTGCTCTAGTACCTGGAGGCATTCGCATGGgtaagttgcaaaagtaatcttttgatcaatccaattttggtgatg-aactgaccgatgaaaggttcttcgaagggttagtgacatgaaagggtgatgaattMapped 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|120533930|gb|EH262063.1|EH262063EST: CACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGG GAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGG
genomic: CACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgtacaagctc ... tggaattcagGAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCAGAGTTGAGAAGGTGTTGGAAGCAGTTCATATTGCAGCTAATAAAAACACTGTTCCTGGAGATGTGTCTGCCATGGTTCCTGGTGGCATCAGGATGGgtacaagctctttgttgcttctattataatttttatgttttaattcacttacatgatttctcttgtggaattcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG