Sequence
atgc intronic sequence ATGC exonic sequenceTGTTGGTGGTGTTGCAAGAGCACGTGCTTTTGCAAAGAAATTATCTGATGCACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacggcaacaaaatctgcattgtatccttgaaatgccaaatctttctttttttttcatttatttaacagagtacttttaaacagattttattggg...
Basic information
species | Glycine max |
transcript | GLYMA17G16400.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G16400.3 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g03540.1 (Oryza sativa), 5'ss of exon 5
TGTTGGTGGTGTTGCAAGAGCACGTGCTTTTGCAAAGAAATTATCTGATGCACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacggcaacaaaatctgcattgtatccttgaaatgccaaatctttctttttttt--tcatttatttaacagagtac-ttttaaacagattttattggg
|||||| |||||||| || |||||||||||||| || || |||| ||||||||| |||| ||||| || || || | ||||||||||||||||| |||| || | ||| | ||| || | | | | | ||| ||| | | | | |||| ||| | || ||| | | ||
TGTTGGAGGTGTTGCCAGGGCACGTGCTTTTGCCAAAAAGCTATCAGATGCACCTCTAGCAATTGTTGATAAAAGAAGGCATGGACACAATGTTGCCGAGgcaagtagagcattc---tttgctttctggtttatacaggataaacatttatgaatgcaagtaggaaaaataacttagttcgttctaagttcttctgatcttc
upper sequence: GLYMA17G16400.3 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G038791_T01 (Zea mays), 5'ss of exon 5
TGTTGGTGGTGTTGCAAGAGCACGTGCTTTTGCAAAGAAATTATCTGATGCACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacggcaacaaaatctgcattgtatccttgaaatgccaaatctttctttttttttcatttatttaacagagtacttttaaacagatt--ttattggg--
|||||| |||||||| || |||||||| ||||| || || | || ||||||||| ||||||||||||| || || | || ||||| ||||| ||||||| || | | || || | | ||| || | | | | | | || || | | | | | | || || |||| |
TGTTGGAGGTGTTGCCAGGGCACGTGCCTTTGCCAAAAAGCTGTCAGATGCACCTCTAGCTATTGTAGATAAAAGAAGGCAAGGACATAATGTCGCTGAGgcaagtattcttgta----ctatgttatttgcttaaacagtgtagccagccaaatggatgtatatagaagaaaaatatcaacttcatagcttaaatattagttt
upper sequence: GLYMA17G16400.3 (Glycine max), 5'ss of exon 5
lower sequence: AT1G32380.1 (Arabidopsis thaliana), 5'ss of exon 5
TGTTGGTGGTGTTGCAAGAGCACGTGCTTTTGCAAAGAAATTATCTGATGCACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacggcaacaaaatctgcattgtatccttgaaatgc-caaatctttctttttttttcat-ttatttaacagagtacttttaaacagattttattggg
||||||||| || || || |||||||| ||||| |||||||||||||||||||| | || ||||| || || ||||| || || |||||||| |||||||||| || || | || |||| ||||||| | | ||| | | | | || | || | ||| || ||
TGTTGGTGGAGTAGCCAGGGCACGTGCATTTGCTAAGAAATTATCTGATGCACCACTTGCCATTGTCGATAAAAGGCGTCACGGCCACAATGTCGCTGAGgtaaaaatt-taaatttaccttcattttatcctttctacacgcaagttctcatgtgttgataatactctttcccacag------------------------
upper sequence: GLYMA17G16400.3 (Glycine max), 5'ss of exon 5
lower sequence: AT2G35390.3 (Arabidopsis thaliana), 5'ss of exon 4
TGTTGGTGGTGTTGCAAGAGCACGTGCTTTTGCAAAGAAATTATCTGATGCACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacggcaacaaaatctgcattgtatccttgaaatgccaaatctttctttttttttcatttatttaacagagtacttttaaacagattttattggg
||||||||| || || || || || |||||||||||||||||||| |||||||| | || ||||| || || ||||| |||||||||||||||||||||| | | | | | | | || | ||| | || |||| | | | | | | |||| |
TGTTGGTGGAGTAGCCAGGGCCCGCGCTTTTGCAAAGAAATTATCAGATGCACCACTTGCCATTGTCGATAAAAGGCGTTCTGGACACAATGTTGCTGAGgtatccctttctttcagagtcagagtttgctcaccaacaccgcttgcttccccttaagttcacatttgttatactttcctttcag---------------
upper sequence: GLYMA17G16400.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv02s0012g00530.t01 (Vitis vinifera), 5'ss of exon 5
TGTTGGTGGTGTTGCAAGAGCACGTGCTTTTGCAAAGAAATTATCTGATGCACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacggcaacaaaatctgcattgtatccttgaaatgccaaatctttctttttttttcatttatttaacagagtacttttaaacagattttattggg--
|||||| || ||||||||||||||||||||||||||||| || |||||||| |||||||| || || || || ||||| || ||||| ||||||||||||||||| | || ||||| | || | | |||| | || || || | || |||||| | | || ||| || | |||
TGTTGGAGGAGTTGCAAGAGCACGTGCTTTTGCAAAGAAGTTGTCTGATGCGCCTTTAGCCATAGTGGATAAAAGGCGTCAAGGACATAATGTTGCTGAGgtaatttccacaccaaaactcagcctacattatcttt-ttccaacttactcattggattgc-cttggttaacatattcattataatttttttcttttgtctt
upper sequence: GLYMA17G16400.3 (Glycine max), 5'ss of exon 5
lower sequence: PP1S403_8V6.1 (Physcomitrella patens), 5'ss of exon 4
TGTTGGTGGTGTTGCAAGAGCACGTGCTTTTGCAAAGAAATTATCTGATGCACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataa---cggcaacaaaatctgcattgtatccttgaaatgccaaatctttctttttttttcatttatttaacagagtacttttaaacagattttattggg
|| ||||| ||||| | || || |||||||| |||||||| || ||||| ||||| ||||| |||||||||||||| || || || || || |||||||| | || | ||| | | || | | | | ||||| | || || || || || || ||
CGTGGGTGGAGTTGCTCGCGCTCGAGCTTTTGCGAAGAAATTGTCAGATGCCCCTTTGGCTATAGTAGACAAGAGGCGGCACGGTCATAACGTCTCTGAGgtatttttttcgtcttcaatgttcatgactttggttttctctacgataaggttcttagagctagggtttgttgctagtgtgtttcatcgttctccttctt---
upper sequence: GLYMA17G16400.3 (Glycine max), 5'ss of exon 5
lower sequence: EFJ35181 (Selaginella moellendorffii), 5'ss of exon 5
TGTTGGTGGTGTTGCAAGAGCACGTGCTTTTGCAAAGAAATTATCTGATGCACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacggcaacaaaatctgcattgtatccttgaaatgccaaatctttctttttttttcatttatttaacagagtacttttaaacagattttattggg
|||||||||||| |||||||| || || ||||| |||||||| |||||||| || | || || || |||||| | | || || ||||||||| | |||||| |||||| | |||| | | || || | | | |
TGTTGGTGGTGTCGCAAGAGCTCGGGCATTTGCCAAGAAATTGTCTGATGCCCCGCTTGCCATCGTCGACAAGCGCAGACAAGGTCACAATGTTTCAGAGgtag--acggcatcctcttctggctgttttctcatgcgtgttgatttgctactgcag-------------------------------------------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|214009165|gb|DB988558.1|DB988558EST: CACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAG GTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGAT
genomic: CACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacgg ... tgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTGGTGGTGTTGCAAGAGCACGTGCTTTTGCAAAGAAATTATCTGATGCACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacggcaacaaaatctgcattgtatccttgaaatgccaaatctttctttttttttcatttatttaacagagtacttttaaacagattttattggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA