Sequence
atgc intronic sequence ATGC exonic sequenceTTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgtcaaatgttagaatccaaatttagtgtttaactgaggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga...
Basic information
species | Glycine max |
transcript | GLYMA16G26210.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g70370.1 (Oryza sativa), 5'ss of exon 8
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgtcaaatgttagaatccaaatttagtgtttaactg-aggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga
|||||| | | || ||||| | || |||||||| ||||||||||||||||| || ||||| |||||||| ||||||||||||||||| | ||| || ||| || || ||| | | | || || |||| || | ||| || | || | || | | | || ||| |
TTGTGAATTACTTGGAGTGGACCCAGCGGATGTTGATATTATGATGGGAACATTTACTAAATCATTTGGATCTTGTGGAGGTTACATTGCAGCATCAAAAgta----tgaagcatattaacgtactatttagatgaacaactttagtctgtagatt--ttaaatctgacccatggattactctatgtttatcag-------
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g70380.1 (Oryza sativa), 5'ss of exon 8
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgtcaaatgttagaatccaaatttagtgtttaactgaggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga
||||||||| | ||||||||| | |||||||| || ||||||||||||||||| || ||||| |||||||| || |||||||||||||| | ||| || ||| | || | || || | | || ||||| ||||| |||| | || | || | | || ||
TTGTGAGCTACTAGGTGTGGATCCAGCTGATGTCGATATTATGATGGGAACATTTACTAAATCATTTGGATCATGCGGAGGTTACATTGCAGCATCAAAAgta------tgaag----aagattcacttgctatacttggctgagcactgtagttgataaatctgaccatggattatgctgtgtttatcag---------
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g70360.1 (Oryza sativa), 5'ss of exon 8
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgtcaaatgttagaatccaaat-ttagtgtttaactgaggcagtaagttgctaaagtttgtcagagtaggtgttcagatt-ttctttcttattga----
|||||||| | || |||||| | |||||||||||||| |||||||| ||| || | || || |||||||| |||||||||||||||| | ||| || ||| | | || | || || | ||| || ||||| || | | | | | | | | |||| || |||| | || |
GTGTGAGCTACTAGGAGTGGATCCGGCTGATGTTGACATCATGATGGGCACACTCTCAAAGTCATTTGGATCGAGTGGAGGTTACATTGCAGCATCAAAAgta--tgaattaattaagcagattcacttaccagttcttgtctgagaagacaaaagagttga---taataaaactgatccttggattattttttcatgtttaccag
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G010202_T01 (Zea mays), 5'ss of exon 8
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgtcaaatgttagaatccaaatttagtgtttaactgaggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga
||||||||| | || |||||| | ||||||||||||||||||||||| |||||||| ||||| |||||||| ||||||||||||||||| | ||| || ||| ||| | | | || || | | | |||||| ||| | || | | | |||||| ||||
TTGTGAGCTGCTCGGAGTGGATCCAGCTGATGTTGACATTATGATGGGTACATTCACAAAATCATTTGGATCATGTGGAGGTTACATTGCAGCATCAAATgtaagcgtgtatagtcacttagctg----ttgttgactgaatacattttgaagttgacaaa-tctgacccaccaaatgttcattttttag----------
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 8
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtac-ttttgtcaaatg---ttagaatccaaatttagtgtttaactgaggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga
|||||| ||| | || || || | |||||||| || || |||||||| || |||||||| ||||||||||| ||||| || || ||||| | ||| ||||||| | | || | | | | | ||| | ||| || || | ||| | ||| ||| | | | | | | | |||||
TTGTGAACTCCTTGGGGTTGACCCAGCTGATGTAGATATAATGATGGGTACTTTCACCAAGTCTTTTGGATCATGTGGTGGATATATTGCCGCATCAAAGgtacatactactgaaagcgatcatattacaactgtagcactt---tgtaagaccgagtag---aagattgaccggttccttttactatataactttcag-----
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G067257_T01 (Zea mays), 5'ss of exon 10
-----------------------------------------------------TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtactt-ttgtcaaatgtta--gaatccaaatttagtgtttaactgaggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga
|||||||||| | || || || |||||||| ||||| |||||||| || || ||||| ||||||||||| ||||| || || ||||| | ||| ||||||| | | || || | | || | | ||| || | ||
TATCTGGATGAGGCCCATAGCATTGGTGCTGTTGGGCAGTCTGGCCGCGGTGTTTGTGAGCTCCTTGGGGTTGACCTAGCTGATGTAGACATAATGATGGgtacttttaccaagtcttttggatcatgtggtggatatattgctgcatcaaaggtacatactactgaaagtgactgtattacactgtagcacttgg-taag-------------------------------------------------------
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G357734_T03 (Zea mays), 5'ss of exon 14
-----------------------------------------------------TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtactt-ttgtcaaatgtta--gaatccaaatttagtgtttaactgaggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga
|||||||||| | || || || |||||||| ||||| |||||||| || || ||||| ||||||||||| ||||| || || ||||| | ||| ||||||| | | || || | | || | | ||| || | ||
TATCTGGATGAGGCCCATAGCATTGGTGCTGTTGGGCAGTCTGGCCGCGGTGTTTGTGAGCTCCTTGGGGTTGACCTAGCTGATGTAGACATAATGATGGgtacttttaccaagtcttttggatcatgtggtggatatattgccgcatcaaaggtacatactactgaaagtgactgtattacactgtagcacttgg-taag-------------------------------------------------------
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: AT3G48780.1 (Arabidopsis thaliana), 5'ss of exon 8
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgt----acttttgtcaaatgttagaatccaaatttagtgtttaactg-aggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga
|||||| ||| | || || || ||| ||||||| ||||| ||||||||||| ||||| ||||||||||| || ||||| || || ||||||||||| ||||| | |||| | || | || | | | ||| || | | | || | || |||| | | || || | |||| |
TTGTGAACTCCTTGGAGTTGACACTTCTGATGTGGACATAATGATGGGAACTTTCACGAAATCTTTTGGGTCTTGTGGTGGCTATATTGCGGGATCAAAGgttggcaattttatacttcttttgcattta--ctgatcttttgtttgcattccttggtttatttaattttggtaaatcagaatttgaacctttcagaaaaac---
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: AT5G23670.2 (Arabidopsis thaliana), 5'ss of exon 8
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgtcaaatgttagaatccaaatttagtgtttaactgaggcagtaagttgctaa---agtttgtcagagtaggtgttcagattttctttcttattga---
|||||| ||| |||| || || || |||||||| ||| | ||||||||||| ||||| ||||||||||| || ||||| || || ||||| |||||||||| || ||||| || | | |||| | | | | | | ||| |||| | | | || | ||| | | | |
TTGTGAACTCCTGGGAGTTGACACAGCTGATGTGGACGTAATGATGGGAACCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGg-----ttagaaaatgctaca-tttgtttttatttactgatcttgcaaatctcctgcagtcttgttttggtaaatcaagtttctgaccttttagtttagctcaaaa
upper sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 8
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgt-caaatgttagaatccaaatttagtgtttaactgaggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga
|||||||||||| || |||||| |||||||||| || || ||||||||||||| || ||||| |||||||| ||||| || || ||||| ||||| ||||| ||| | ||| || | | | | | | || | | | | | | || ||| | || |||| | | | | || |
TTGTGAGCTCTTAGGAGTGGATCCTGCTGATGTGGATATCCTGATGGGAACATTTACTAAATCATTTGGATCATGTGGTGGCTATATTGCAGGATCAAAGgtttgtttttgcaactgccctcagttgactgtgatatatatat-atatatatatatatatatgtgtgtgtgggtgtgtgtggaaaaaggcaatattctaagMapped 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|7796241|gb|AW781638.1|AW781638EST: CATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAG GACCTTATCCAACACTTGAAGTACACTTGCCCTGCTCATCTTTATGCAACT
genomic: CATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgt ... ctactgtcagGACCTTATCCAACACTTGAAGTACACTTGCCCTGCTCATCTTTATGCAACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgtcaaatgttagaatccaaatttagtgtttaactgaggcagtaagttgctaaagtttgtcagagtaggtgttcagattttctttcttattga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG