Sequence
atgc intronic sequence ATGC exonic sequenceGGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatttgaatttgaagaccaattttatgtttatgcaatacccctaagatttgctaatttagtataattatcatatttgaatcctctaattgatgg...
Basic information
species | Glycine max |
transcript | GLYMA08G21830.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 5'ss of exon 5
GGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatttgaattt-gaagaccaattttatgtttatgcaatacccctaagatttgctaatttagtataattatcatatttg-aatcctctaattgatgg-
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TGGTAGATGTGATGCTTTTGCTACAGAATACGATCTTGAAGCTGAGGAGTATGTTCCAATCCCCAAAGGGGAGGTCCATAAGAAGAAGGAAATAGTGCAGgtaatttggtgaattttagcctaaaagatttttgcacaggcaagtcttttttgcattgt--actatctatgaat-ttatgttggtgataattaaagaaatgaa
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G032267_T02 (Zea mays), 5'ss of exon 5
GGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatttgaatttgaagaccaattttatgtttatgcaatacccctaagatttgctaatttagtataattatcatatt--tgaatcct-ctaattgatgg--
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TGGTAGATGTGATTCTTTTGCTACAGAATATGATCTTGAAGCTGAAGAGTATGTTCCTATCCCCAAAGGTGAAGTCCATAAGAAAAAGGAAATAGTGCAGgtatc--attctgattcaatcttaaccttaacattt---caatattttctgcagtgatttttttcacatggtacctttgttagtgaatgttatcaacttatcatg
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G018697_T03 (Zea mays), 5'ss of exon 6
GGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatttgaatttgaagaccaattttatgtttatgcaatacccctaa-gatttgctaatttagtataattatc-atatttgaatcctctaattgatgg
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TGGTAGATGTGATTCTTTTGCTACAGAATACGATCTTGAAGCTGAAGAGTATGTTCCTATCCCCAAAGGTGAAGTCCATAAGAAAAAAGAAATTGTGCAGgtatc--attctgatgctatcttagtcttaacatttcattattttctgcagcgatcttttttcacacagtggctctttgttagtgaatgttgtcatgattaa
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 5
GGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgt--atttaatttgaatt----------tgaagaccaatt-ttatgtttatgcaataccc--ctaagatttgctaatttagtataattatcatatttgaatcctctaattgatgg-------------------------------------------
||| ||||||||||||| || || || ||||| || ||||| ||||| ||||||||||| || || |||||||| |||||||| || ||||| || ||||| | | ||||| | || ||| |||| || | ||| | | | || || | || ||| |||| ||| | || |||| || |
AGGTAGAAGTGATGCTTTTGCCACTGAATTTGATCTGGAAGCAGAAGAATATGTTCCACTTCCCAAAGGAGAGGTCCACAAAAAGAAAGAGATAGTGCAGgtttaccttctttgacctctcccttctgtgtagagtaattattttctttgttgatttattatctgttatgtattagttt-gtatgtgtattaaccttagttcctaagtttattaagactacttgttactcaactagaccatatacttttgactgatag
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 5'ss of exon 5
GGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatttgaatttgaagaccaattttatgtttatgcaatacccctaagatttgctaatttagtataattatcatatttgaatcctctaattgatgg--------
||| ||||||||||||| |||||||| ||||||||||| || ||||||||||||||||| ||||| ||||||||||||||||| |||||||| |||||||| ||| ||||| | | || || ||| | | | | | ||| | | | || | || ||| || ||| | | | | ||
GGGCAGAAGTGATGCTTTTGCTACAGAATTTGACCTTGAGGCGGAAGAGTATGTTCCACTTCCTAAAGGAGAGGTTCACAAAAAGAAGGAGATAGTTCAGgt-------ttgtttttgataaattctgggatcttcatgaaccatgcttggaacttgattctattgttcatttctca-gttgcaatggtatcttgggtgctttgcctt
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S4_73V6.1 (Physcomitrella patens), 5'ss of exon 6
GGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatttga--att-------------tgaagaccaattttatgtttatgcaatacccctaagatttgctaatttagtataattat---catatttgaatcctctaattgatgg
|| |||||||||| || || |||||||||||| | ||||| || |||||||| || | || || ||||| ||||||||||| || |||||||||||||| | | ||| ||| || || || || | ||||| || || || | || | || | ||| |||| ||| | | | | | | || |
TGGGAGAAGTGATGCCTTTGCCACAGAGTTTGACTTGGAAGCAGAGGAGTATGTGCCTTTACCAAAAGGAGAAGTTCACAAAAAGAAAGAGATTGTTCAGgttagtgctatgattattatgctcgttgcagtgtagccctcttgattctttatacagtatcctttgtatattttatgcttgtaatcttatgcccatttctatgtgttatggtacatag
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ33466 (Selaginella moellendorffii), 5'ss of exon 5
GGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatttgaatttgaagaccaattttatgtttatgcaatacccctaagatttgctaatttagtataattatcatatttgaatcctctaattgatgg
|| ||||||||||||||||| || || || ||||||||||| || ||||||||||| || || || |||||||||||||| || || || || ||||||||| | | | ||| | | | | | ||| | || | || | | | ||| ||
TGGACGAAGTGATGCTTTCGCGACCGAATTCGACCTTGAAGCGGAGGAGTATGTTCCTCTACCGAAAGGAGAGGTTCACAAGAAGAAAGAAATCGTTCAGgtactaactgtga-tgaaagggtccagtttctcttcacacagc-------aagtgggtgtattcag----------------------------------
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ27201 (Selaginella moellendorffii), 5'ss of exon 5
GGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatttgaatttgaagaccaattttatgtttatgcaatacccctaagatttgctaatttagtataattatcatatttgaatcctctaattgatgg
|| ||||||||||||||||| || || || ||||||||||| || ||||||||||| || || || |||||||||||||| || || || || ||||||||| | | | |||| | ||| ||| | || | || | | | | ||
TGGACGAAGTGATGCTTTCGCGACTGAATTCGACCTTGAAGCGGAGGAGTATGTTCCTCTACCGAAAGGAGAGGTTCACAAGAAGAAAGAAATCGTTCAGgtactaactgtgaagaaagggtccagtttc-tcttcacacagcaagtgtgggtgtatgtag---------------------------------------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|151406331|gb|EV276146.1|EV276146EST: ATGTTCCACTGCCTAAGGGAGAGGTTCACNNNNNNNNGGAGATTGTTCAG GATGCTACCCTACATGATCTGGATGCTGCCAATGCACGACCTCAAGGGGGA
genomic: ATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatt ... gttcttaaagGATGTTACCCTACATGATCTGGATGCTGCCAATGCACGACCTCAAGGGGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGTCGAAGTGATGCTTTCGCTACAGAGTTTGACCTTGAAGCTGAAGAGTATGTTCCACTGCCTAAGGGAGAGGTTCACAAAAAAAAGGAGATTGTTCAGgtatttaatttgaatttgaagaccaattttatgtttatgcaatacccctaagatttgctaatttagtataattatcatatttgaatcctctaattgatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT