Sequence
atgc intronic sequence ATGC exonic sequenceGATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgtcctatcttgtatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaag
Basic information
species | Glycine max |
transcript | GLYMA11G00920.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G00920.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os07g07974.1 (Oryza sativa), 5'ss of exon 7
GATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgtcctatcttgtatgcttgcaatt-tcagttataacatgagttacaaatggtagttttcttttgaag------------------
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GAAGATCCTAACAACACTCCAGCTTCAGCTCGACATAAGAGAGGATGCAATTGCAAGAAGTCAAGCTGTCTTAAGAAATACTGTGAATGCTATCAGgtactaaagattatctgaaaacttgttttcaagacagttatctgaaacttagcctgtaatttgttacttatggtttaaatgcttgatttaataaaag
upper sequence: GLYMA11G00920.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G322090_T01 (Zea mays), 5'ss of exon 8
GATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgt-cctatcttgtatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaag
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GACTTTTCCAATAAAACTCCTGCTTCAGCTCGTCACAAAAGGGGATGCAATTGCAAGAAGTCGTCGTGTCTAAAAAAATACTGTGAATGTTTTCAGgtttaaactcctacatttgtttagtgttatttttttcttgatccctctgtatgcatcttatctttactcttcatcaag-
upper sequence: GLYMA11G00920.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G701689_T01 (Zea mays), 5'ss of exon 7
GATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgtcct-atcttgtatgcttgcaatttcagttataacatgagt-tacaaatggtagttttcttttgaag----
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GACTTCTCCAATAAAACTCCTGCTTCAGCTCGTCACAAAAGGGGATGCAATTGCAAGAAGTCGTCATGTCTAAAAAAATACTGTGAATGTTTTCAGgtttcaactcctacattgatttaatgctctctcttttttcttcttaatccctctgtatgcatcttatctttactcttcatcaag
upper sequence: GLYMA11G00920.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G153754_T01 (Zea mays), 5'ss of exon 7
GATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgtcctatcttg--tatgcttgcaatttcagttat--aacatgagttacaaatggta-gttttcttttgaag----
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GAAGATCCTAACAACACTCCGGCTTCGGCTCGTCACAAGAGAGGATGCAATTGTAAGAAGTCAAGCTGTCTCAAGAAATACTGTGAATGCTACCAGgtaattcatcccaagctgtgatgatctcatctgaaattgtacctgctggattttacttacgctttttaagtgtttggttgaataaag
upper sequence: GLYMA11G00920.1 (Glycine max), 5'ss of exon 9
lower sequence: AT4G14770.1 (Arabidopsis thaliana), 5'ss of exon 6
GATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgtcctatcttgtatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaag---------------------
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GATGATGCAAGCAAAACTCCAGCTTCTGCGCGCCATAAACGTGGCTGCAACTGCAAGAAATCAAACTGTCTGAAGAAATACTGTGAATGCTATCAGgtttttattttc--cctcatcgatgtgctttcaatggtt-ccatgtgattaacttcctatggcctgattccggtaatttggtatgttgtttctttaaag
upper sequence: GLYMA11G00920.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G22780.1 (Arabidopsis thaliana), 5'ss of exon 7
GATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgtc--ctatcttgtatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaag-----------------------
||||| | | |||||| || ||||| |||||||||||| | || ||||||||||| ||||||| ||| | |||||||| |||||||| |||||||||||| | | || |||| || | |||| | || | ||||| | | || | ||| ||
GATGATGCCAGTAAAACCCCGGCTTCTGCACGACACAAACGTGGCTGCAACTGCAAGAAATCAAACTGTATGAAGAAATACTGTGAATGCTATCAGgttttc-ctttcatcgtctattcatattgtattcaatatt--tttctgtgtaagttatattcaatggtctgatttagatactttgttcctaatgatcttgtag
upper sequence: GLYMA11G00920.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G22760.1 (Arabidopsis thaliana), 5'ss of exon 7
GATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgtcctatcttgtatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaag
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GAGGATGCAAGTAAAACTCCAGCTTCAGCGCGACACAAACGAGGCTGTAACTGCAAGAAATCAAACTGTCTGAAGAAATACTGTGAATGCTATCAGgtatttccattaaactccatacacatcagtgtaagatt--cccttctgtggattggttctgattcattgatcgtgtag
upper sequence: GLYMA11G00920.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv05s0020g03880.t01 (Vitis vinifera), 5'ss of exon 8
GATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgtcctatcttgtatgcttgc-aatttcagttataacatgagttacaaatggtagttttcttttgaag-
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GATGAACCTAGCAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAGAAATCAAGTTGCCTAAAGAAATATTGCGAATGCTATCAGgttttt-cccttggtccaccctatattttttttgatgttctatatcatctgattcagaattggtgcctttcttctcaaagMapped 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|14010947|gb|BG725877.1|BG725877EST: GCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAG GGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCT
genomic: GCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcaccc ... tcttttgaagGGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGACCCAAATAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcacccttgtcctatcttgtatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA