Sequence
atgc intronic sequence ATGC exonic sequencegttttgccctttcttcttttgacttttgtttattgttttgcttttgaacttgctgtgtaacccttttatattttagGTTGTCAATATGGAATGGGGAAACTTTTGGTCCTCTCACTTACCAAGAACGTCGTATGACATTGACTTGGATGCTGAGAGCCCAAATCCAAATGATCAG
Basic information
species | Glycine max |
transcript | GLYMA11G01820.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G01820.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G20040.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------------------------gttttgccctttcttcttttgacttttgtttatt-gttttgcttttgaacttgctgtgtaacccttttatatt---ttagGTTGTCAATATGGAATGGGGAAACTTTTGGTCCTCTCACTTACCAAGAACGTCGTATGACATTGACTTGGATGCTGAGAGCCCAAATCCAAATGATCAG
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gtaataactattaagaatcgttacatagttcatccttagaaaccagccatcaaagtttagattccacaggattcaatttaaaagacttgattttttcttctttatgatactttgttattttgtgttagGTGGTCAATATGGAGTGGGGAAACTTTTGGTCATCTCGTCTGCCAAGAACTTCATATGACCTTGAGTTGGATGCAGAGAGTATGAATTCAAATGACATG
upper sequence: GLYMA11G01820.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G50460.1 (Arabidopsis thaliana), 3'ss of exon 5
----------gttttgccctttcttcttttgacttttgtttattgttttgcttttgaacttgctg-----tgtaacccttttatattttagGTTGTCAATATGGAATGGGGAAACTTTTGGTCCTCTCACTTACCAAGAACGTCGTATGACATTGACTTGGATGCTGAGAGCCCAAATCCAAATGATCAG
|||| ||| |||| | | | ||| || | || |||| |||| ||| |||| || |||||||| |||||||| |||||||||||||| || || ||||| ||||||||||||||||||||||| ||||| ||||| |||||||| |
gtactaagaatcattgcatggtctatttttagaaaccagctttagacccaaaag-aaacatgtttaagattgattccctcttatgtttcagGTGGTAAATATGGAGTGGGGAAATTTTTGGTCCTCTCATTTGCCTAGAACTTCGTATGACATTGACTTGGATGCAGAGAGTTCAAATGCAAATGATATG
upper sequence: GLYMA11G01820.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------gttttgccctttcttcttttgacttttgttt-attgttttgcttttgaacttgctgtgtaac-ccttttatattttagGTTGTCAATATGGAATGGGGAAACTTTTGGTCCTCTCACTTACCAAGAACGTCGTATGACATTGACTTGGATGCTGAGAGCCCAAATCCAAATGATCAG
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gtatcctttcttgattttctagtcatacattacctaacactgcatttttgagaataaagactgattcttctatttattatttgacttcatgtcatcttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAGMapped 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|254322469|gb|GR837883.1|GR837883EST: TTGATGCTATTATCAAGTGTCAAGGCCTTCTTATGACATCTGGACGAATG GTTGTCAATATGGAATGGGGAAACTTTTGGTCCTCTCACTTACCAAGAACG
genomic: TTGATGCTATTATCAAGTGTCAAGGCCTTCTTATGACATCTGGACGAATGgttttgccct ... tatattttagGTTGTCAATATGGAATGGGGAAACTTTTGGTCCTCTCACTTACCAAGAACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttttgtttattgttttgcttttgaacttgctgtgtaacccttttatattttagGTTGTCAATATGGAATGGGGAAACTTTTGGTCCTCTCACTTACCAAGAACGTCGTATGACATTGACTTGGATGCTGAGAGCCCAAATCCAAATGATCAG
gtgtaac putative branch site (score: 3)
cccttttatatttt CT-rich tract
ttttatatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttgccctttcttcttttgacttttgtttattgttttgcttttgaacttgctgtgtaacccttttatattttagGTTGTCAATATGGAATGGGGAAACTTTTGGTCCTCTCACTTACCAAGAACGTCGTATGACATTGACTTGGATGCTGAGAGCCCAAATCCAAATGATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG