Sequence
atgc intronic sequence ATGC exonic sequenceATGATGGAATGGTGGTACCAATCTGCTGAGGAGAGAATGTCAGCTCCTACAGTATATCCTCCTCCCCCTCCTCCGCCTCCACCAAAGgtgaagaaacaaatttttaacttttctcccacctctctttctccatcggtagttgttttgactttattttacctgaatgacttattctggacaaataaat...
Basic information
species | Glycine max |
transcript | GLYMA19G43700.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G43700.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os10g32960.1 (Oryza sativa), 5'ss of exon 8
ATGATGGAATGGTGGTACCAATCTGCTGAGGAGAGAATGTCAGCTCCTACAGTATATCCTCCTCCCCCTCCTCCGCCTCCACCAAAGgtgaa-gaaacaaatttttaacttttctcc-----cacctctctttctcc---atcggtagttgttttgactttat---tttacctgaatgacttatt-ctggacaaataaat-------------------------------------------------------------------
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ATGATGGAATGGTGGTATCAATCTGCTGAGGAAAGAATGTCAGCTCCGACTGTATATCCCCCACCCCCTCCTCCACCTCTGCCAAAGgtacatgttatatgctagtcaatatatgcagaaagcagttacccttgtctgaaatctcaatttgcagtaacatggtgaacagaactctttgttttgccactgtgcagttggatatattttgtggtttaatagttctttatatgactactgtttgatttgagcgtctacttctttcatcag
upper sequence: GLYMA19G43700.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G023970_T02 (Zea mays), 5'ss of exon 7
ATGATGGAATGGTGGTACCAATCTGCTGAGGAGAGAATGTCAGCTCCTACAGTATATCCTCCTCCCCCTCCTCCGCCTCCACCAAAGgtgaagaaacaaatttttaacttttctcccacctctctttctccatcggtagttgttttgactttattttacctgaatgacttattctggacaaata-aat------------------------------------
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ATGATGGAGTGGTGGTATCAATCTGCTGAAGAAAGAATGTCAGCTCCGACTGTATATCCACCACCCCCTCCTCCTCCAACTCCTAAGgtacat-------ctcttgactatactcatgccagcacagagcta-cagccattcatttgtcacaattatagaagcatgaaaccttttagatgttcatgatcataatattttgtggatttgtgccaatctttgctag
upper sequence: GLYMA19G43700.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G04460.1 (Arabidopsis thaliana), 5'ss of exon 8
ATGATGGAATGGTGGTACCAATCTGCTGAGGAGAGAATGTCAGCTCCTACAGTATATCCTCCTCCCCCTCCTCCGCCTCCACCAAAGgtgaagaaacaaatttttaacttttctcccacctctctttctccatcggtagttgttttgactttattttacctgaatgacttattctggacaaataaat
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ATGATGGAATGGTGGTATCAATCCGCTGAAGAGAGATTATCAGCTCCAACAGTGTACCCTCCACCTCCACCTCCTCCAGCCCCAAAGgtaatcaatcaggt-----agcattatctgaaacttatgtaaacatcactcagt----cgactttgtcaaagtt---tttgtttttctgtaacag-----
upper sequence: GLYMA19G43700.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0036g01130.t01 (Vitis vinifera), 5'ss of exon 8
ATGATGGAATGGTGGTACCAATCTGCTGAGGAGAGAATGTCAGCTCCTACAGTATATCCTCCTCCCCCTCCTCCGCCTCCACCAAAGgtgaagaaacaaatttttaacttttctcccacctctctttctccatcggtagttgttttgactttattt---tacctgaatgacttattctggacaaataaat
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ATGATGGAGTGGTGGTACCAATCTGCTGAGGAAAGAATGTCAGCTCCAACTGTATACCCCCCACCACCTCCCCCTCCACCTCCAAAGgtgagt---catttctttaatatgcttccaatctatctcttttcctccataatccacctccctccatttctatgcatgtatatcaaactttctatttccctat
upper sequence: GLYMA19G43700.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S26_47V6.1 (Physcomitrella patens), 5'ss of exon 8
ATGATGGAATGGTGGTACCAATCTGCTGAGGAGAGAATGTCAGCTCCTACAGTATATCCTCCTCCCCCTCCTCCGCCTCCACCAAAGgtgaagaaacaaatttttaacttttctcccacctctctttctccatcggtagttgttttgactttattttacctg-aatgacttattctggacaaataaat-----------------------
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ATGGTGGAATGGTGGTACCAGTCTGCAGAAGAAAGAGTGACAGCACCTGCTGTTTATCCTCCACCCCCTCCTCCGCCGCCTCCAGTGgt----atgttttttttttgcagtccaggaatttattgatgtataaagtgggaagtcctctgtggaatcaagctatgaggatatatgttgatttaatcagtgtatcgttcttggcattttacagMapped 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|193683016|gb|FK620950.1|FK620950EST: TGTCAGCTCCTACAGTATATCCTCCTCCCCCTCCTCCGCCTCCACCAAAG GTAGCCAAAGAAGGGATACCACTACCACCAGACAGAACAATTTGCCCCTTA
genomic: TGTCAGCTCCTACAGTATATCCTCCTCCCCCTCCTCCGCCTCCACCAAAGgtgaagaaac ... atataaacagGTAGCCAAAGAAGGGATACCACTACCACCAGACAGAACAATTTGCCCCTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGATGGAATGGTGGTACCAATCTGCTGAGGAGAGAATGTCAGCTCCTACAGTATATCCTCCTCCCCCTCCTCCGCCTCCACCAAAGgtgaagaaacaaatttttaacttttctcccacctctctttctccatcggtagttgttttgactttattttacctgaatgacttattctggacaaataaat
- - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttctcc