Sequence
atgc intronic sequence ATGC exonic sequence...gaaaatcatatagtcccttgatgtctctttttcattgatttgtttatttcaagtaattatgccttgcaattgaggtgtgattcaaattttgaatgtatagCTGAATATCGTGGAAGGGAAGATGCAATATCTGTATGATGATAGTGGGAGGCGTTACCTTGATGCATTTGCGGGGATAGTTACTGTTTCTTGCGGACATT
Basic information
species | Glycine max |
transcript | GLYMA08G14850.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G14850.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g07570.1 (Oryza sativa), 3'ss of exon 1
--gaaaatcatatagtcccttgatgtctctttttcattgatttgtttatttcaagtaattatgccttgcaattgaggtgtgattcaaatt-ttgaatgtatagCTGAATATCGTGGAAGGGAAGATGCAATATCTGTATGATGATAGTGGGAGGCGTTACCTTGATGCATTTGCGGGGATAGTTACTGTTTCTTGCGGACATT
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aaaaaaaaaaactgttatactagtaagaatcatggcgaaaggcatgtgtttctgtttttcat---tttaaaatggaatgcatttttttttgtccattttacagCTGAACATTGTGGAAGGGAAGATGCAGTATCTGTACGATGAGAATGGGAAGAGATACCTCGATTGCTTCGGAGGCATCGTGACAGTTTCATGCGGCCATT
upper sequence: GLYMA08G14850.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G39660.1 (Arabidopsis thaliana), 3'ss of exon 1
gaaaatcatatagtcccttgatgtctctttttcattgatttgtttatttc-aagtaattatgccttgcaattgaggtgtgatt--caaattttga----atgt-atagCTGAATATCGTGGAAGGGAAGATGCAATATCTGTATGATGATAGTGGGAGGCGTTACCTTGATGCATTTGCGGGGATAGTTACTGTTTCTTGCGGACATT
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-cgattcat-tagctcccgaagac------taagaggatttgtggacttagaagccagcttgatgatccatggatctctgattattcagtgttgatgttatgttgcagCTTAACATCGTTGAAGGGAAGATGCAGTACTTGTATGATGAGAGTGGTAGGCGATATCTGGATGCCTTTGCTGGAATAGTCACTGTGTCGTGCGGTCACT
upper sequence: GLYMA08G14850.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 1
gaaaatcatatagtcccttgatgtctctttttcattgatttgtttatttcaagtaattatgccttgcaattg-aggtgtgattcaaattttgaatgtata----gCTGAATATCGTGGAAGGGAAGATGCAATATCTGTATGATGATAGTGGGAGGCGTTACCTTGATGCATTTGCGGGGATAGTTACTGTTTCTTGCGGACATT
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----atcata-aactaatatatgaacagacttgatgtactcagtacacctaataaatatcatcccaacattgcatacatgttctaacttttcattatgtacacagGTCAATGTTGTTGAAGGGAAGATGCAGTATTTGTTTGATGAGAATGGCAAGCGCTATCTTGATGCCTTTGCTGGAATAGTTACTGTGTCATGTGGGCATT
upper sequence: GLYMA08G14850.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ12384 (Selaginella moellendorffii), 3'ss of exon 1
gaaaatcatatagtcccttgatgtctctttttcattgatttgtttatttcaagtaattatgccttgcaattgaggtgtgattcaaattttgaatgtat---agCTGAATATCGTGGAAGGGAAGATGCAATATCTGTATGATGATAGTGGGAGGCGTTACCTTGATGCATTTGCGGGGATAGTTACTGTTTCTTGCGGACATT
| | | | | || || ||| |||| | || | | | | || | |||| ||||| ||||||||||||||||||||||| || ||||| ||||| | | | ||| | ||||| ||||| ||||| || |||||||| || ||||
------------------------------------------gtgagtgtgaat--ttgtgtctt---tttgatggatggattga-tcgcgggcgtcttgcagCTCAATATTGTGGAAGGGAAGATGCAATATCTTTACGATGAGAGTGGAAAGAGGTACTTGGATGCGTTTGCTGGGATTGTCACTGTTTCCGTGGGTCATT
upper sequence: GLYMA08G14850.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ33785 (Selaginella moellendorffii), 3'ss of exon 1
gaaaatcatatagtcccttgatgtctctttttcattgatttgtttatttcaagtaattatgccttgcaattgaggtgtgattcaaattttgaatgtat---agCTGAATATCGTGGAAGGGAAGATGCAATATCTGTATGATGATAGTGGGAGGCGTTACCTTGATGCATTTGCGGGGATAGTTACTGTTTCTTGCGGACATT
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-----------------------------------------gtgagt---gagaatttgtgtcct---tttgatggatcgatcga-tcgcgggcgtcttgcagCTCAATATTGTGGAAGGGAAGATGCAATATCTTTACGATGAGAGTGGAAAGAGGTACTTGGATGCGTTTGCTGGGATTGTCACTGTTTCCGTGGGTCATTMapped 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|298195656|gb|HO044047.1|HO044047EST: AGCGCAAAACGTTCCTCGGTCCTTCCGTCTTCCACTACTATAAGAAACCT CTGAATATCGTGGAAGGGAAGGTGCAATGTCTGTATGATGATAGTGGGAGG
genomic: AGCGCAAAACGTTCCTCGGTCCTTCCGTCTTCCACTACTATAAGAAACCTgtgagtctcc ... gaatgtatagCTGAATATCGTGGAAGGGAAGATGCAATATCTGTATGATGATAGTGGGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcaagtaattatgccttgcaattgaggtgtgattcaaattttgaatgtatagCTGAATATCGTGGAAGGGAAGATGCAATATCTGTATGATGATAGTGGGAGGCGTTACCTTGATGCATTTGCGGGGATAGTTACTGTTTCTTGCGGACATT
aaattttgaatgtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaaatcatatagtcccttgatgtctctttttcattgatttgtttatttcaagtaattatgccttgcaattgaggtgtgattcaaattttgaatgtatagCTGAATATCGTGGAAGGGAAGATGCAATATCTGTATGATGATAGTGGGAGGCGTTACCTTGATGCATTTGCGGGGATAGTTACTGTTTCTTGCGGACATT
gaaaatc
- - - - - - - cccttga
- - - - - - - - - - - - - - - - - -tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggtgtg