Sequence
atgc intronic sequence ATGC exonic sequence...ctctctctctctccgtgtgtgtgtgtgtgtttgtgttacctgttcattgttattctgctgagttttgaacaatgggtaagatatggccacttgtctgcagTTGTTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCTTTGCAAACTCATCCAAACATTACTATTATTGGAGAAGAG
Basic information
species | Glycine max |
transcript | GLYMA07G39380.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39380.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 3'ss of exon 7
ctctctctctctccgtgtgtgtgtgtgtgtttgtgttacctgttcattgttattctgctgagttttga-acaatg--ggtaagatatggccacttgtctgcagTTGTTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCTTTGCAAACTCATCCAAACATTACTATTATTGGAGAAGAG
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---atataaaatccttgagtgtcaacttctgcagatggttaatttaacattattttgtctatttctgacacaatactaataagtatttgttatgttcatgtagTTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTCTGCAAACACATCCTAATGTTGCACTCATTGGAGAAGAG
upper sequence: GLYMA07G39380.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G059151_T01 (Zea mays), 3'ss of exon 7
ctctctctctctccgtgt-gtgtgtgtgtgtttgtgttacctgttcattgttattctgctgagttttgaacaatgggtaagata-tggccacttgt--ctgcagTTGTTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCTTTGCAAACTCATCCAAACATTACTATTATTGGAGAAGAG
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---gcagtgctaacgtgtagtccatgaatattggaagtatataa-cagaattacagatcggacattttgtcaataaaaattctaacaagcacttgctcttgcagTTGTGAGGCTTATGGGTCGTGCTGCTTCTCACATTACGCTGGAATGCGCTTTGCAAACACACCCCAATGCTGCACTCATTGGGGAAGAG
upper sequence: GLYMA07G39380.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 3'ss of exon 7
ctctctctctctccgtgtgtgtgtgtgtgtttgtgttacctgttcattgttattctgctgagttttgaacaatgggtaagatatggccacttgtctgcagTTGTTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCTTTGCAAACTCATCCAAACATTACTATTATTGGAGAAGAG
|| || ||| || | | | | | || || | ||| | | | | | | | | ||| |||||| || |||||||| ||||| ||||| ||||||||||| ||||| ||||||||||| |||||||||||||| |||||||||||||||
------------------gtaagtttgttttctcttagcaaaatgaattttcttgatacaaatttactatatcatttcatctgttgat-tatctctatagTTGTGCGTCTTATGGGTCGTGCTGCTTCTCACATTACACTTGAATGCGCTTTGCAAACCCATCCAAACATTACCATTATTGGAGAAGAG
upper sequence: GLYMA07G39380.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 3'ss of exon 7
ctctctctctctccgtgtgtgtgtgtgtgtttgtgttacctg----ttcattgttattctgctgagttttgaacaatgg-gtaagatatggccacttgtctgcagTTGTTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCTTTGCAAACTCATCCAAACATTACTATTATTGGAGAAGAG
|| || ||| | || | || | ||| | |||| || | | | | ||| | || ||||||||| | |||||||| ||||| ||||| |||||||| || || |||||||| |||||||| |||||||| || |||||||||||||||
--------------gtaagtaaatgtttaacaaaatttcttgaagttgcatcat--ttctattgtgccctatttgtttacatgctgtatcacattttcattgcagTTGTAAGACTTATGGGTCGTGCTGCTTCCCACATTACGCTTGAGTGTGCTTTACAAACTCACCCAAACATAACCATTATTGGAGAAGAG
upper sequence: GLYMA07G39380.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 3'ss of exon 7
-ctctctctctctccgtgtgtgtgtgtgtgtttgtgttacctgttc-attgttattctgctgagttttgaacaatgggtaagatatggccacttgtctgcagTTGTTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCTTTGCAAACTCATCCAAACATTACTATTATTGGAGAAGAG
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gatttcaactcttttatgctccaatttacattt-ccttatttgttttatttcctttcttttatatgattgtaagtggtatttgtatgtttgtgtgcat-cagTTGTACGACTTATGGGGCGTGCAGCCTCACACATTACATTGGAGTGTGCTTTGCAAACTCATCCAAACATTACAATTATTGGTGAAGAGMapped 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|7591049|gb|AW706790.1|AW706790EST: GATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATT TTGGTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCGT
genomic: GATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATTgtaagttctc ... ttgtctgcagTTGTTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgttattctgctgagttttgaacaatgggtaagatatggccacttgtctgcagTTGTTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCTTTGCAAACTCATCCAAACATTACTATTATTGGAGAAGAG
cttgtct CT-rich tract
taagatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctctctctctccgtgtgtgtgtgtgtgtttgtgttacctgttcattgttattctgctgagttttgaacaatgggtaagatatggccacttgtctgcagTTGTTCGGCTTATGGGACGTGCAGCTTCGCACATTACACTGGAATGTGCTTTGCAAACTCATCCAAACATTACTATTATTGGAGAAGAG
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