Sequence
atgc intronic sequence ATGC exonic sequenceTTGGGAAATTTTTGGAGCTCAGTTTCTCAAACCACGCTGCAGCCAGCAGGGTGGCAAGCTGTGGTCACTCTTTACACAGAGATTGCCTTCGTTTTTATGGgtaattagtcttccctatttttgggtttgaaccaaacaaatggtctaaggtttttaaatgttgcctatttataatgaaactgccatggcatgtggtcttg...
Basic information
species | Glycine max |
transcript | GLYMA16G01590.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G01590.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os08g34950.1 (Oryza sativa), 5'ss of exon 6
TTGGGAAATTTTTGGAGCTCAGTTTCTCAAACCACGCTGCAGCCAGCAGGGTGGCAAGCTGTGGTCACTCTTTACACAGAGATTGCCTTCGTTTTTATGGgtaattagtcttccctatttttgggtttgaaccaaacaaatggtctaaggtttttaaatgttgcctatttataatgaaactgccatggcatgtggtcttg
|||| |||||| |||| || || |||||||| || || ||||| || ||||| || || ||||| || ||| | ||||| ||||||||||||||||| ||||| || ||| || | || |||| ||| || || | ||||| ||||
TTGGAAAATTTCTGGAACTTAGCTTCTCAAATCATGCGGCAGCTAGTAGGGTAGCCAGTTGTGGCCATTCTCTTCACAGGGATTGCCTTCGTTTTTACGGgtatcccctcactcctcttcaatttcattaaattggtaaata--ctatggctt--acatgtttgtattttag----------------------------
upper sequence: GLYMA16G01590.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G153722_T01 (Zea mays), 5'ss of exon 6
TTGGGAAATTTTTGGAGCTCAGTTTCTCAAACCACGCTGCAGCCAGCAGGGTGGCAAGCTGTGGTCACTCTTTACACAGAGATTGCCTTCGTTTTTATGGgta-attagtcttccctatttttgggtttgaaccaaacaaatggtctaaggtttttaaatgttgcctatttataatgaaactgccatggcatgtggtcttg
|||| ||||||||||| || ||||| |||||||| || ||||| || ||||| || ||||||||||| || | ||||| ||||||||||| ||||| ||||| |||| | | | ||| | ||| | | || | || | |||| | || |
TTGGAAAATTTTTGGAACTTAGTTTTTCAAACCATGCGGCAGCAAGTAGGGTTGCCAGCTGTGGTCATTCACTTCACAGGGATTGCCTTCGCTTTTACGGgtacattattatctcttatccat---cttgtcatattgttaagggttgtaccttacatgtgttttcatttcag----------------------------
upper sequence: GLYMA16G01590.1 (Glycine max), 5'ss of exon 8
lower sequence: AT3G14270.1 (Arabidopsis thaliana), 5'ss of exon 7
TTGGGAAATTTTTGGAGCTCAGTTTCTCAAACCACGCTGCAGCCAGCAGGGTGGCAAGCTGTGGTCACTCTTTACACAGAGATTGCCTTCGTTTTTATGGgtaattagt-cttccctatttttgggtttgaaccaaacaaatggtctaaggtttttaaatgttgcct-atttataa--tgaaactgccatggcatgtggt-cttg-----
||||||| ||| ||||||||||||||||||| ||||| || || || || || || | ||||| || ||| | || |||||||| ||||| || |||||||| || | ||| | | | ||| ||||| | || | | || ||||| ||| || |||| || | | | || || || | |
TTGGGAAGTTTCTGGAGCTCAGTTTCTCAAATCACGCAGCTGCTAGTAGAGTAGCTTGTTGTGGCCATTCTCTGCATAGAGATTGTCTTCGCTTCTATGGgtacttttttcttgcgtccactcctccttgggccaaata--tgattaa---ttgttaaaaattgtcttgtttaaaagtctgttttttcctaacaagttgtgcccgtgcag
upper sequence: GLYMA16G01590.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv09s0002g00380.t01 (Vitis vinifera), 5'ss of exon 8
TTGGGAAATTTTTGGAGCTCAGTTTCTCAAACCACGCTGCAGCCAGCAGGGTGGCAAGCTGTGGTCACTCTTTACACAGAGATTGCCTTCGTTTTTATGGgtaattagtcttcccta----tttttgggtttgaaccaaacaaatggtctaaggtttt-taaatgttgcctatttataatgaaactgccatggcatgtggtcttg
||||||||||||||||||||||||| |||||||| || || || ||||||||||| || |||||||| || ||||||||||||| ||||| || |||||||| || ||||| | || || ||| | ||| | || || || || | || | | ||| | | | || | |
TTGGGAAATTTTTGGAGCTCAGTTTTTCAAACCATGCAGCTGCAAGCAGGGTGGCTAGTTGTGGTCATTCCCTACACAGAGATTGTCTTCGGTTCTATGGgtatttcttcttctcccaaatttcttttacttgtaaaaaatacataaacttgagtattatcaagagctcttgtttcctacagaggacctgtgcaaaaatg-----
upper sequence: GLYMA16G01590.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S65_215V6.1 (Physcomitrella patens), 5'ss of exon 11
TTGGGAAATTTTTGGAGCTCAGTTTCTCAAACCACGCTGCAGCCAGCAGGGTGGCAAGCTGTGGTCACTCTTTACACAGAGATTGCCTTCGTTTTTATGGgtaattagtcttccctatttttgggtttgaaccaaacaaatggtctaag-gtttttaaatgttgcct-atttataatgaaactgccatggcatgtggtcttg
|||| || || |||||||| |||||||||||||| ||||||||||| | | || |||||||||||||| || ||||| || || | ||||||||||| ||| || | || | | || | | | | | | | || || || | || || | || || ||| | |||
TTGGCAAGTTCTTGGAGCTGAGTTTCTCAAACCATGCTGCAGCCAGTCGTGCTGCTGCTTGTGGTCACTCTTTGCATAGAGACTGTCTAAGATTTTATGGgta--tagctctctggcatcttttctgagtactcttcggacgttttgcgtgattgtaggtgccgtcttggttgttctgtgtcttgtatgtgctcaaaccttaMapped 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|18040973|gb|BM309267.1|BM309267EST: GTGGCAAGCTGTGGTCACTCTTTACACAGAGATTGCCTTCGTTTTTATGG ATTTGGAAGAATGGTTGCTTGTTTTCGATATGCATCAATTGATGTTCACTC
genomic: GTGGCAAGCTGTGGTCACTCTTTACACAGAGATTGCCTTCGTTTTTATGGgtaattagtc ... tctcttgcagATTTGGAAGAATGGTTGCTTGTTTTCGATATGCATCAATTGATGTTCACTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGGGAAATTTTTGGAGCTCAGTTTCTCAAACCACGCTGCAGCCAGCAGGGTGGCAAGCTGTGGTCACTCTTTACACAGAGATTGCCTTCGTTTTTATGGgtaattagtcttccctatttttgggtttgaaccaaacaaatggtctaaggtttttaaatgttgcctatttataatgaaactgccatggcatgtggtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG