Sequence
atgc intronic sequence ATGC exonic sequencegtttgagttgatttatagatttggttttcccatggtattctatttccaccctaggatctgtaaggtttaatgatgcacctgacttgtttgtgatgaattttgataaacagATTAGGTCTGCAATTGAAAACAGCACCTCAGATTATGACAAGGAAAAGTTACAGGAAAGATTAGCCAAGCTTTCTGGTGGTGTTGCCGTGCTTAAG
Basic information
species | Glycine max |
transcript | GLYMA10G25630.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 12
gtttgagttgatttatagatttggttttcccatggtattctatttccaccctaggatctgtaaggtttaatgatgcacctgacttgtttgtgatgaattttgataaacagATTAGGTCTGCAATTGAAAACAGCACCTCAGATTATGACAAGGAAAAGTTACAGGAAAGATTAGCCAAGCTTTCTGGTGGTGTTGCCGTGCTTAAG
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----------------------gttcgtacaacattaattcattgcgttactagtgcattattttgaaaatcgtggttgttgatagattat-ataaatgctgtgttgcagATTAGATCTGCAATTGAGCTAAGCACTTCTGATTATGACAAGGAAAAGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG
upper sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 11
gtttgagttgatttatagatttggttttcccatggtattctatttccaccctaggatctgtaaggtttaatgatgcacctgacttgtttgtgatgaattttgataaacagATTAGGTCTGCAATTGAAAACAGCACCTCAGATTATGACAAGGAAAAGTTACAGGAAAGATTAGCCAAGCTTTCTGGTGGTGTTGCCGTGCTTAAG
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------gttcgt--gcaatattacttttgttgtgctgtcttaaattgcttcta--actttctggttctgataattta--tggattatggattatggatgttg-----cagATTAGATCAGCAGTTGAGAACAGCACTTCAGATTATGACAAGGAAAAGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG
upper sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 12
lower sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 11
gtttgagttgatttatagatttggttttcccatggtattctatttccaccctaggatctgtaaggtttaatgatgcacctgacttgtttgtgatgaattttga--taaacagATTAGGTCTGCAATTGAAAACAGCACCTCAGATTATGACAAGGAAAAGTTACAGGAAAGATTAGCCAAGCTTTCTGGTGGTGTTGCCGTGCTTAAG
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gttagcgtgtttttcgcttttttatcatttagtggttcagtgtcatatacctttgccctttttt-ccaactggtagttttaatatgttttgaatttttattaaaccacgcagATACGATCCATGGTTGAAGCAAGCACTTCTGATTATGACAAGGAGAAGTTGCAAGAAAGGTTGGCTAAGCTTTCGGGTGGTGTTGCTGTACTAAAG
upper sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 12
lower sequence: AT3G23990.1 (Arabidopsis thaliana), 3'ss of exon 10
-----gtttgagttgatttatagatttggttttcccatggtattctatttccaccctaggatctgtaaggtttaatgatgcacctgact-tgtttgtgatgaattttgataaacagATTAGGTCTGCAATTGAAAACAGCACCTCAGATTATGACAAGGAAAAGTTACAGGAAAGATTAGCCAAGCTTTCTGGTGGTGTTGCCGTGCTTAAG
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gtaatttttaaccttataccctgata-aattggttagtaataaa--atttgtatgcaagaaattatgaagtgtatgaaagtagttcgttctaattgcttggtattgcaactaacagATTAGGTCAGCAATTGAACTGAGCACCTCAGATTATGACAAGGAAAAACTGCAAGAAAGGTTGGCTAAGCTCTCTGGAGGTGTTGCAGTGTTGAAGMapped 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|23734596|gb|BU765533.1|BU765533EST: TTCTTGACGGAGCAGGTGACAAGAAAGCACTTGAGGAAAGATGCGAGCAG ATTAGGTCTGCAATTGAAAACAGCACCTCAGATTATGACAAGGAAAAGTTA
genomic: TTCTTGACGGAGCAGGTGACAAGAAAGCACTTGAGGAAAGATGCGAGCAGgtttgagttg ... tgataaacagATTAGGTCTGCAATTGAAAACAGCACCTCAGATTATGACAAGGAAAAGTTA
EST:
gi|16282060|gb|BI944814.1|BI944814EST: TTCTTGACGGAGCAGGTGACAAGAAAGCACTTGAGGAAAGATGCGAGCAG ATTAGGTCTGCA
genomic: TTCTTGACGGAGCAGGTGACAAGAAAGCACTTGAGGAAAGATGCGAGCAGgtttgagttg ... tgataaacagATTAGGTCTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctgtaaggtttaatgatgcacctgacttgtttgtgatgaattttgataaacagATTAGGTCTGCAATTGAAAACAGCACCTCAGATTATGACAAGGAAAAGTTACAGGAAAGATTAGCCAAGCTTTCTGGTGGTGTTGCCGTGCTTAAG
atgaattttgataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgagttgatttatagatttggttttcccatggtattctatttccaccctaggatctgtaaggtttaatgatgcacctgacttgtttgtgatgaattttgataaacagATTAGGTCTGCAATTGAAAACAGCACCTCAGATTATGACAAGGAAAAGTTACAGGAAAGATTAGCCAAGCTTTCTGGTGGTGTTGCCGTGCTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG