Sequence
atgc intronic sequence ATGC exonic sequenceGCCGCCCCGGTGCCTCCTCCAAGGCCCGCGTCTATGCCGATGTCAACGTCGTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaacataacagattctccttcttcttttattgtttttccccccttcgattttcaaatacctttaaccttttttattttttatttattttggataatataaatgttttcttttttccttttccaaagtaaaagggaatttagggttgttgttgttgttattgttgtgactctttttttttag
Basic information
species | Glycine max |
transcript | GLYMA17G17520.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G17520.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G112056_T01 (Zea mays), 5'ss of exon 1
GCCGCCCCGGTGCCTCCTCCAAGGCCCGCGTCTATGCCGATGTCAACGTCGTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaacataacagattctccttcttcttttattgtttttccccccttcgattttcaaatacctttaaccttttttattttttatttattttggataatataaatgttttcttttttccttttccaaagtaaaagggaatttagggttgttgttgttgttattgttgtgactctttttttttag
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AACTCGGTGGTGCCGCCTCGGTGGCGCGCGTCTACGCCGATGCCAACGCCCAGCGCCCCAAGGAGTACTGGGACTACGAGTCGCTCGACATCCAGTGGGGgtaggcacatggagctggagctcggctttacactttgatcccc-----agatttgaatggtgtaagg---ttttatttctgattcgtct--gtccgtgcag---------------------------------------------------------------------------------
upper sequence: GLYMA17G17520.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G154799_T01 (Zea mays), 5'ss of exon 1
GCCGCCCCGGTGCCTCCTCCAAGGCCCGCGTCTATGCCGATGTCAACGTCGTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaacataacagattctccttcttcttttattgtttttccccccttcgattttcaaatacctttaaccttttttattttttatttattttggataatataaatgttttcttttttccttttccaaagtaaaagggaatttagggttgttgttgttgttattgttgtgactctttttttttag
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AACCCGGTGGCGCCGCCTCGGTGGCGCGCGTCTACGCCGACGCTAACGCCCAGCGCCCCAAGGAGTACTGGGACTACGAGTCGCTCGACATCCAGTGGGGgtaggcgcacggagctggagctcggctttacactgtgatcccc-----agatttgaatggtgtaagg---ttttatttctgatgcgtct--gtccgtgcag---------------------------------------------------------------------------------
upper sequence: GLYMA17G17520.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G138774_T01 (Zea mays), 5'ss of exon 2
GCCGCCCCGGTGCCTCCTCCAAGGCCCGCGTCTATGCCGATGTCAACGTCGTTCGCCCC-AAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaa-cataacagattctccttcttcttt-tattgtttttccccccttcgattttcaaatacctttaaccttttttat-tttttatttattttggataatataaatgttttcttttttccttttccaaagtaaaagggaatttagggttgttgttgttgttattgttgtgactctttttttttag
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-ACCCGGTGGCGTCGCCTCGGTGGCGCGCGTCTACGCCGATGCCAACGCCCAGCGCCCCCAAGGAGTACTGGGACTACGAGTCGCTCGACATCCAGTGGGGgtaggcacacgaagctggagctcggctttacactgtgatccccagatttgaatggtgtaaggtttta---tttctgatgcgtctgtccatgcag-------------------------------------------------------------------------------------------
upper sequence: GLYMA17G17520.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv07s0129g00270.t01 (Vitis vinifera), 5'ss of exon 1
GCCGCCCCGGTGCCTCCTCCAAGGCCCGCGTCTATGCCGATGTCAACGTCGTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaacataacagattctccttcttcttttattgtttttccccccttcgattttcaaatacctttaaccttttttattttttatttattttggataatataaatgttttcttttttccttttccaaagtaaaagggaatttagggttgttgttgttgttattgttgtgactctttttttttag
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GCCGCCCCGGCGCTCCCTCCAAGGCTAGGGTTTACGCTGACATCAATGTGATCCGGCCCAAAGAGTATTGGGACTACGAGTCCCTCACCGTTCAATGGGGgtaatagtttgg----------ttaccttaaagat-----cccgtttagcttccaaggaaatgtaggaatg---gattttcaattatttgggac----tcagggcctcgagaacctctaatc------------------------------------------------------------
upper sequence: GLYMA17G17520.2 (Glycine max), 5'ss of exon 1
lower sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
GCCGCCCCGGTGCCTCCTCCAAGGCCCGCGTCTATGCCGATGTCAACGTCGTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaa----cataacagattctccttcttcttttattgtttttcc-ccccttcgattttcaaatacctttaaccttttttattttttatttattttggataatataaatgttttcttttttccttttccaaagtaaaagggaatttagggttgttgttgttgttattgttgtgactctttttttttag
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GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttctacagagatatctgggcacggtgaggaatcatcgactagaaacc---------------------------------------------------------------------------------------Mapped 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|22522067|gb|BU080878.1|BU080878EST: GTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGG GGAGCAAGATGATTATGAGGTGGTGAGAAAGGTGGGTAGGGGGAAATACAG
genomic: GTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaacataac ... ttttttttagGGAGCAAGATGATTATGAGGTGGTGAGAAAGGTGGGTAGGGGGAAATACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCGCCCCGGTGCCTCCTCCAAGGCCCGCGTCTATGCCGATGTCAACGTCGTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaacataacagattctccttcttcttttattgtttttccccccttcgattttcaaatacctttaaccttttttattttttatttattttggataatataaatgttttcttttttccttttccaaagtaaaagggaatttagggttgttgttgttgttattgttgtgactctttttttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA