Sequence
atgc intronic sequence ATGC exonic sequence...aatagttaattacatatttacaatatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
Basic information
species | Glycine max |
transcript | GLYMA05G26100.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g48270.1 (Oryza sativa), 3'ss of exon 7
aatagttaattacatatttacaatatat--cagttagtttaggctgaattagtgt-gttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
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-cttctaactcacatccttaccatacatgatattctgtccttgctccatttctatcgatattttagtaagttttccctacctaatagttacaacgg--tgcagGTGATTCGGAGAAACTAGTGAAAGTCTTATTTGAGCTTGCAAGGCATCATGCACCATCCACCATTTTTCTCGATGAGATTGATGCTATTATTAGCCAACG
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g55260.1 (Oryza sativa), 3'ss of exon 7
--aat---agttaattacatatttacaatatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
||| | | ||| | | | || | | | | | | | | | | | | | ||||| | ||| ||| | | | |||||| |||||||||||| |||| ||||| | ||||| ||||| || ||||||||||| || |||||||||||||||||||||||||| || || || |||||
tcaatctaattcaatcatggaacttaaaacttttgatcaatagaag-tatttaaatatttaattttaatgttg-gtatttttctg---tgtgcgcgctaatgcagGGGATTCAGAGAAGCTAGTTAAAGTTCTGTTTGAGCTTGCTAGACATCATGCACCATCGACAATATTTCTTGATGAAATTGATGCTATTATCAGCCAACG
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G115766_T02 (Zea mays), 3'ss of exon 6
---aatagttaattacatatttacaatatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttgg-actgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
|||| || | | | || | | | || | | || | || | ||| | | ||| | | | | ||||||||| || ||||| |||||||||||||||| ||||||||||||||||||||||| || || || || |||||||| |||||||| ||||||||||||||
agctgcagttg-ccgcacagcgaacttgtacaacaaaatata---taattttacttttttcatccagaaaagttttgcttattctaatagtccgagtgatgcagGTGACTCGGAGAAACTAGTGAAAGTGTTATTCGAACTTGCAAGGCATCATGCACCATCTACTATTTTCCTTGATGAGATTGATGCTATCATTAGTCAACG
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 7
-------aatagttaattacatatttacaatatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
| |||| || | | || |||| ||| | |||| | | || | || | | | | | || || | || |||||| |||||||||||| | || ||||| | ||||| ||||| |||||||||||||| || |||||||| ||||||||||| ||||| ||||| || || ||
tccttgttgttcttaagtataga---actatatttcactctttttattcccatttctctattaggactggagaatctaatgtcttt----ttcatatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G34560.1 (Arabidopsis thaliana), 3'ss of exon 7
aatagttaattacatatttacaatatatcagttagtttaggc--tgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
| | |||||| | | | | ||| | | | |||| || || | || | | | || | || ||| || | |||||||||| |||||||| | | ||| | || || || || |||||||||||||| || ||||||||||||||||| || || || ||||| || |||||
--------gtgaaatattttgtacct-ttatttactcttaaccatgaaataagatgcagtctttaggagaaataaaatt-tgggcttttcaatgtttttcagGTGATTCTGAGAAGTTGATAAGAGTTCTGTTCGATCTAGCTAGGCATCATGCACCTTCGACAATATTTCTTGATGAGATCGACGCGATCATAAGCCAACG
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 7
aatagttaattacatatt-taca-atatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
|||||| || | || | || || | |||| | | | | || ||||| || || | | | | ||| | || || |||||||||||||||||||||||||||||||||||| ||||| ||||| ||||| || ||||| ||||||||||||||||||||||| | || ||||||||
gatagtttatgatatctgatatgcatccttttcttagatgatggactgtcagcaagttatggtgggagtgtatcattcctttatgtttttgttta--tgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACGMapped 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|13789838|gb|BG652429.1|BG652429EST: GACTACNNNNNNNAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAG GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: GACTACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcatgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
EST:
gi|51335898|gb|CO979764.1|CO979764EST: TCTGTAGTCAGCAAATGGCGAG GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: TCTGTAGTCAGCAAATGGCGAGgcatgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
tttatttt CT-rich tract
aatacgtacatttaca TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatagttaattacatatttacaatatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
- - - - - - - - - - - - - - - - - - - aggctga
- - - - - - - - - - - - - - - - - - - - - - - -tagtgtg