Sequence
atgc intronic sequence ATGC exonic sequenceGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAAgtgagtaatacttgtctgcatttaaggctgcatgagctaacctaaagaagaaattcttgtatccttgattttgtacattttatattttcaggtgtgcact...
Basic information
species | Glycine max |
transcript | GLYMA05G30430.2 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30430.2 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os01g21940.1 (Oryza sativa), 5'ss of exon 8
GAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAAgtg-----agtaatacttgtctgcatttaaggctgcatgagctaacctaaagaagaaattcttgtatccttgattttgtacattttatattttcaggtgtgcact
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GAAAGCTTCATGATGCACGATGATGCGGTGCTTTCTGTTGATTTCAGTAGAGATTCTGAGATGCTGGCATCTGGATCACAGGATGGAAAGATTAAGgtacccccattattctgcatgtatattttacgct-tatttgttcttgtcaagtagttaacttgatatcagcacttctcatcattgta-atttttttatatga---
upper sequence: GLYMA05G30430.2 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G037683_T01 (Zea mays), 5'ss of exon 8
GAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAAgtgagtaatacttgtctgcatttaaggctgcatgagctaac-ctaaagaagaaattcttgtatccttgattttgtacattttatattttcaggtgtgcact-----------
||| || |||||||| || || ||||||| ||||| || ||||| || ||||| |||||||| |||||||| || || |||||||||||||| ||| |||| || || ||| || || | |||||| |||||| |||| ||||| || || ||| |||| | || |
GAAAGCTTTATGATGCACGAGGAACCTGTGCTGTGTGTTGATTTTAGTAGGGATTCTGAAATGCTGGCATCTGGATCACAGGATGGAAAGATTAAGgtg-----cccttgct---atcaaatcctgtattttctttcactaaaggagaaata-ttgt-tcctta--ccaatatatcttacatttaaatgtttttttcacattgtaata
upper sequence: GLYMA05G30430.2 (Glycine max), 5'ss of exon 9
lower sequence: AT1G73720.1 (Arabidopsis thaliana), 5'ss of exon 9
GAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAAgtgagtaatacttgtctgcattt----aaggctgcatgagctaacctaaagaagaa-attcttgtatccttg-------attttgtacattttat-attttcaggtgtgcact--------------------------------------------------
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GAATCTTTCATGATGCATGATGATCCTGTCCTCTGCATAGACTTTAGCAGAGATTCAGAGATGCTTGCATCTGGGTCACAAGATGGAAAGATTAAAgtaagttccagctgcatatgtttccttaaagttgaattttttgtctgaagatagactattgcggcagtttggtagatatatcttcttcctctcattggtcccatatgtattctgattgaatacaaatagaaaaactagacttagatgcatgtcacttttgcag
upper sequence: GLYMA05G30430.2 (Glycine max), 5'ss of exon 9
lower sequence: Vv17s0000g08930.t01 (Vitis vinifera), 5'ss of exon 9
GAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAAgtgagtaatacttgtctgcatttaaggctgcatgagctaacctaaagaagaaattcttgtatccttgattttgtacattt---tatattttcaggtgtgcact---
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GAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAAgt-attgttaattgttcatacattggtttg---aagttaaatttct-atttgttcctttaattccatatcttctatttttgggtgtcttgccatg-gtggatttttMapped 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|208212961|gb|GE014974.1|GE014974EST: GCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA GTCTGGCGTATTAGGACTGGTCAGTGCTTACGGCGTCTTGAACGTGCTCAT
genomic: GCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAAgtgagtaata ... ttcattttagGTCTGGCGTATTAGGACTGGTCAGTGCTTACGGCGTCTTGAACGTGCTCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAAgtgagtaatacttgtctgcatttaaggctgcatgagctaacctaaagaagaaattcttgtatccttgattttgtacattttatattttcaggtgtgcact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA