Sequence
atgc intronic sequence ATGC exonic sequenceTCAGGATGGTCTTGTGTTCCGTGAAAACTTTTCTATTAGATCATATGAGATTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgtcctcatacaagtgaatctttatgatcttcagagatgagtatgctttgactaagatagggctgtttatttagtcactgtaattcaatttcatatatagataatatcattctgttgttacttttcatactatatttatatcaactatttgcttaacaacag
Basic information
species | Glycine max |
transcript | GLYMA05G08060.3 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G08060.3 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os11g43820.1 (Oryza sativa), 5'ss of exon 2
TCAGGATGGTCTTGTGTTCCGTGAAAACTTTTCTATTAGATCATATGAGATTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgtcctcatacaagtgaatctttatgatcttcagagatgagtatgctttgactaagatagggctgtttatttagtcactgtaattcaatttcatatatagataatatcattctgttgttacttttcatactatatttatatcaactatttgcttaacaacag
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CCAGGACGGTATGGTGTTTAGGCAGAACTTCATGATTCGGTCCTACGAGATTGGTGCTGATCGTACAGCTTCTATAGAGACATTGATGAATCATTTACAGgtaagtggttgcacattc---tgtttttagttttatttctcatttcagcat--tttgttatagattcatatgtctctttcaagctggcaatt--atttaaaattttgcag-----------------------------------------------------------
upper sequence: GLYMA05G08060.3 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os06g05130.1 (Oryza sativa), 5'ss of exon 2
TCAGGATGGTCTTGTGTTCCGTGAAAACTTTTCTATTAGATCATATGAGATTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgtcc--tcatacaagtgaatctttatgatcttcagagatgagtatgctttgactaagatagggctgtttatttagtcactgtaattcaatttcatatatagataatatcattctgttgttacttttcatactatatttatatcaactatttgcttaacaacag
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CCAAGACGGGCTGGTGTTTAGGCAAAACTTCTTGATTCGGTCCTACGAGATTGGTGCTGATCGTACAGCTTCTATTGAGACATTAATGAATCATTTACAGgtgatacaatggagctatgctgctttagcttt----tcttccgtattt--ttcactattggtacattatgttcgtg-gcatactaactgtaatttgaagctttgcag----------------------------------------------------------------
upper sequence: GLYMA05G08060.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G079308_T01 (Zea mays), 5'ss of exon 9
TCAGGATGGTCTTGTGTTCCGTGAAAACTTTTCTATTAGATCATATGAGATTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgtcctcatacaagtgaatctttatgatcttcagagatgagtatgctttgactaagatagggctgtttatttagtcactgtaattcaatttcatatatagataatatcattctgttgttacttttcatactatatttatatcaactatttgcttaacaacag
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ACATGATGGCCTCATGTTCAAGCAGAACTTCTCCATTAGGTCCTATGAGATTGGGGCTGATAGGACGGCATCTATAGAGACAATGATGAACCATTTGCAGgtaag---gatttgttacatttgaggtgtga-gattgttgtggctgaggat---tggactatgaaaaagtt-tggatttgatc-cag----------------------------------------------------------------------------------
upper sequence: GLYMA05G08060.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM5G829544_T01 (Zea mays), 5'ss of exon 2
TCAGGATGGTCTTGTGTTCCGTGAAAACTTTTCTATTAGATCATATGAGATTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgtcctcatacaagtgaatctttatgatcttcagagatgagtatgctttgactaagatagggctgtttatttagtcactgtaattcaatttcatatatagataatatcattctgttgttacttttcatactatatttatatcaactatttgcttaacaacag
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TCAGGATGGGCTGGTTTTTAGGCAAAACTTCTGGATTCGGTCCTATGAGATTGGTGCCGATCGTACGGCTTCTATAGAGACATTAATGAATCATTTACAGgtaa---cacaatgatacca-cgaaacttagt--ttctttaccctttttttgctctatttactattggtccatcttgtt--tcactgtgcctcacttt---attttga-attttcag----------------------------------------------------
upper sequence: GLYMA05G08060.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G007489_T01 (Zea mays), 5'ss of exon 2
TCAGGATGGTCTTGTGTTCCGTGAAAACTTTTCTATTAGATCATATGAGATTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgtcctcatacaagtgaatctttatgatcttcagagatgagtatgctttgactaagatagggctgtttatttagtcactgtaattcaatttcatatatagataatatcattctgttgttacttttcatactatatttatatcaactatttgcttaacaacag
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CCAGGATGGGATGGTGTTTAGGCAAAACTTCATTATTCGGTCCTATGAGATTGGTGCCGATCGTACTGCTTCTATAGAGACATTAATGAATCACTTACAGgtgacacaatgatactacaaaacgtagtttgtctgccttt--------tttgctctatttactattggtctatcttgtt--tcattgtgcctcgcttt---attttga-attttcag----------------------------------------------------
upper sequence: GLYMA05G08060.3 (Glycine max), 5'ss of exon 2
lower sequence: AT1G08510.1 (Arabidopsis thaliana), 5'ss of exon 2
TCAGGATGGTCTTGTGTTCCGTGAAAACTTTTCTATTAGATCATATGAGATTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgtcctcatacaagtgaatctttatgatcttcagagatgagtatgctttgactaagatagggctgtttatttagtcactgtaattcaatttcatatatagataatatcattctgttgttacttttcatactatatttatatcaactatttgcttaacaacag
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TCAGGATGGCCTTGTGTTCCGTCAGAATTTTTCTATTAGGTCATATGAAATAGGTGCTGATCGCTCTGCATCTATAGAAACCGTCATGAATCATCTGCAGgta---ccatttgattatgattacggttacctg-ttgtcactggtttaattgatatg--tatgaacaagctcttatgctcatgacag----------------------------------------------------------------------------------
upper sequence: GLYMA05G08060.3 (Glycine max), 5'ss of exon 2
lower sequence: Vv11s0016g04480.t01 (Vitis vinifera), 5'ss of exon 2
TCAGGATGGTCTTGTGTTCCGTGAAAACTTTTCTATTAGATCATATGAGATTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgtcctcatacaagtgaatctttatgatcttcagagatgagtatgctttgactaagatagggctgtttatttagtcactg-taattcaatttcatatatagataatatcattctg-ttgttacttttcatactatatttatatcaactatttgcttaacaacag
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CCAAGATGGTCTTGTTTTCAGGCAAAACTTCTCGATTAGATCATATGAAATAGGTGCTGATCGAACCGCATCCATAGAAACGTTGATGAATCATTTACAGgtatgaacaa--ttaattcatcacatttatgtggccaaaagaaa-gagaatacccctgtttaaaaatgaacactcataaggcatctggttgtttatcatcttgattggtgtgtgtaagcctgcttgctccttcacaagcttgaagtttctc---tccttgtatcgcag---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|254318984|gb|GR830440.1|GR830440EST: TTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAA GAAACTGCACTTAATCATGTTAAAAGTGCTGGGCTTCTTGGTGATGGCTTT
genomic: TTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgt ... ttaacaacagGAAACTGCACTTAATCATGTTAAAAGTGCTGGGCTTCTTGGTGATGGCTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCAGGATGGTCTTGTGTTCCGTGAAAACTTTTCTATTAGATCATATGAGATTGGTGCTGATCGTACCGCATCTATAGAAACAGTAATGAACCATTTGCAAgtaagtccgtcctcatacaagtgaatctttatgatcttcagagatgagtatgctttgactaagatagggctgtttatttagtcactgtaattcaatttcatatatagataatatcattctgttgttacttttcatactatatttatatcaactatttgcttaacaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT