Sequence
atgc intronic sequence ATGC exonic sequence...gttttggcttaaggagagatttatttcaccaagacacatgtatcctatggattgctcatcttgtaatttgtctgagatgtctatttcattctttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAGTTTCAGCTCACGGTTAATGTTGCTGCTCTTGTAATAAATGTTGTGGCAG
Basic information
species | Glycine max |
transcript | GLYMA07G00630.1 |
intron # | 28 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G00630.2 (Glycine max), 3'ss of exon 25
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 3'ss of exon 26
gttttggcttaaggagagatttatttcaccaagacacatgtatcctatggattgctcatcttgtaatttgtctgagatgtctatttcattctttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAGTTTCAGCTCACGGTTAATGTTGCTGCTCTTGTAATAAATGTTGTGGCAG
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---------------------------gtatgtacac-tgtgttctgttattggccttccatgactgcaacttatagtattcttttctctcgcttt-tagGTTGTCAGATGGGGTCGCTCGGTTTATGCAAACATTCAGAAATTTATACAGTTTCAGTTAACCGTCAACGTTGCAGCCTTGATTATTAACGTTGTTGCTG
upper sequence: GLYMA07G00630.2 (Glycine max), 3'ss of exon 25
lower sequence: GRMZM5G893864_T01 (Zea mays), 3'ss of exon 5
gttttggcttaaggagagatttatttcaccaagacacatgtatcctatg-gattgctcatcttgtaat-ttgtctgagatgtctatt-tcattctttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAGTTTCAGCTCACGGTTAATGTTGCTGCTCTTGTAATAAATGTTGTGGCAG
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-gtttggccta--------tttttagaatctaaggatcttgataatacgcgcacatgcctaatacaacgttgtcttacatgttctttatcttttatattctagGTGGTTCGCTGGGGTCGCTCTGTTTATGCAAATATCCAAAAGTTTATTCAGTTCCAGCTTACCGTAAATGTTGCAGCTCTTGTCATCAATGTTGTTGCTG
upper sequence: GLYMA07G00630.2 (Glycine max), 3'ss of exon 25
lower sequence: AT3G21180.1 (Arabidopsis thaliana), 3'ss of exon 25
gttttggcttaaggagagatttatttcaccaagacacatgt-atcctatggattgc---tcatcttgtaatttgtctgagatgtctatttcattc-tttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAGTTTCAGCTCACGGTTAATGTTGCTGCTCTTGTAATAAATGTTGTGGCAG
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--gttagtctac-------tacatcaaatatagaaacatgtgatcttctacattatccttcatctttatgcttttctaatcaataaactctgtttactcttccagGTTGTTCGTTGGGGCCGTTCTGTGTATGCTAACATTCAGAAATTCATACAATTCCAGCTTACTGTGAATGTTGCCGCACTTATAATCAATGTTGTAGCAG
upper sequence: GLYMA07G00630.2 (Glycine max), 3'ss of exon 25
lower sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 27
-------gttttggcttaaggagagatttatttcaccaagacacatgtatcctatggattgctcatcttgtaatttgtctgagatgtctatttcattct-ttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAGTTTCAGCTCACGGTTAATGTTGCTGCTCTTGTAATAAATGTTGTGGCAG
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ttgccatgtatgcatttatgaagaggcttatttga--aaattcccagtaattcata-----tttatacc-tggtgtatatgacaattttatttgtttttgccatgtagGTTGTTCGCTGGGGGCGTTCTGTCTATGCAAATATTCAAAAATTTATCCAGTTCCAGCTCACTGTTAATGTTGCAGCTCTTATTATAAATGTTGTTGCAT
upper sequence: GLYMA07G00630.2 (Glycine max), 3'ss of exon 25
lower sequence: EFJ22392 (Selaginella moellendorffii), 3'ss of exon 22
gttttggcttaaggagagatttatttcaccaagacacatgtatcctatggattgctcatcttgtaatttgtctgagatgtctatttcattctttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAGTTTCAGCTCACGGTTAATGTTGCTGCTCTTGTAATAAATGTTGTGGCAG
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--------------------------------------------gta-agataacagcttttggtgcgagtctgaaggatcgaa---attctt---gcagGTTGTACGCTGGGGTCGGTCCGTGTATGCCAATATTCAGAAGTTTATCCAGTTCCAGCTGACTGTAAATGTTGTTGCGCTGGTTCTCAACGTCGTGGCCG
upper sequence: GLYMA07G00630.2 (Glycine max), 3'ss of exon 25
lower sequence: EFJ25508 (Selaginella moellendorffii), 3'ss of exon 23
gttttggcttaaggagagatttatttcaccaagacacatgtatcctatggattgctcatcttgtaatttgtctgagatgtctatttcattctttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAGTTTCAGCTCACGGTTAATGTTGCTGCTCTTGTAATAAATGTTGTGGCAG
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--------------------------------------------gta-agataacagcttttggtgcgagtctgaaggatcgaa---attctt---gcagGTTGTACGCTGGGGTCGGTCCGTGTATGCCAATATTCAGAAGTTTATCCAGTTCCAGCTGACTGTAAATGTAGTTGCGCTGGTTCTCAACGTCGTGGCCGMapped 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|33390180|gb|CA853387.1|CA853387EST: AAAGCTCAGATATTATAATCCTAGACGATAACTTTGCATCAGTGGTAAAG GTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAG
genomic: AAAGCTCAGATATTATAATCCTAGACGATAACTTTGCATCAGTGGTAAAGgtaggtgttc ... ctttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatggattgctcatcttgtaatttgtctgagatgtctatttcattctttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAGTTTCAGCTCACGGTTAATGTTGCTGCTCTTGTAATAAATGTTGTGGCAG
tctatttcattcttt CT-rich tract
ttgtaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttggcttaaggagagatttatttcaccaagacacatgtatcctatggattgctcatcttgtaatttgtctgagatgtctatttcattctttgtgtagGTTGTCCGATGGGGCCGCTCTGTATATGCAAATATTCAGAAATTTATCCAGTTTCAGCTCACGGTTAATGTTGCTGCTCTTGTAATAAATGTTGTGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT