Sequence
atgc intronic sequence ATGC exonic sequenceGTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAGgtatttttttgtgtcaaggataaggatatttgcatcatgactgttgatttatgtgattgtgttcttttataatccaatattaatcctccacagttcttgt...
Basic information
species | Glycine max |
transcript | GLYMA10G05090.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G05090.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os03g17120.1 (Oryza sativa), 5'ss of exon 12
GTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAGgt------------atttt-tttgtgtca-aggataaggatatt-tgcatcatgactgttgatttatgtgattgtgttcttttataatccaatattaatcctccacagttcttgt-----------------------------------------------------------------------------------
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GTAATGCAAGGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGTCTAATTGAGgttaagcgcttagcatttcattcacttcgcaccatcagcatagtatgctgcattttcttttagcatgatgact-tgacgtttgatatacaaattgagttatctggcaactgctgcattcaattattcatcatatcaaatttcctttcttaatttcttcggtgtgacacaagcttctaaagtgcccattccctttgtag
upper sequence: GLYMA10G05090.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G044237_T02 (Zea mays), 5'ss of exon 12
GTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAGgt----------atttttttgtgtcaa---ggataaggatatttgcatcatgactgttgatttatgtgattgtgttcttttataatccaata--ttaatc----ctccacagttcttgt---------------------------------------------------
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GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGCCTAATTGAGgttaagtgcataatcctttgatgccattttgaacattataattgggcttctaagttttaataaaca-atttggcttatctgaaaagttaaaactttagtctgtactatatagctccttcctatattttcatgaatatgacataatgtttaatgtgccttcttctgtgcag
upper sequence: GLYMA10G05090.1 (Glycine max), 5'ss of exon 12
lower sequence: AT2G37500.2 (Arabidopsis thaliana), 5'ss of exon 13
GTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAGgtatttttttgtgtcaaggataaggatatttgcatcatgactgttgatttatgtgattgtgttcttttataatccaa-tattaatcctccacagttcttgt
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GTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACATGTCTCATCGAGgttcac----------aaaataaaactattattccca-accctttgattgaaaacaa-atcttaaccaataacacaaatatcaacag--------------
upper sequence: GLYMA10G05090.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv08s0040g03320.t01 (Vitis vinifera), 5'ss of exon 13
GTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAGgtattt-ttttgtgtcaaggataaggatatttgc--atcatgactgttgattt---atgtgattgtgttcttttataatccaatattaatcctccacagttcttgt
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GTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAGgtatgagtcttacattaaaagcatgcatacttaatgagcctaacccaatattgcaaatttgaccat-ttttccaatcatgcaaaccaaatagtgaacaaat-----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|16277576|gb|BI942452.1|BI942452EST: TTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAG GTCAGTGTGACTGGTGCANATAGTGAGGCTGAAGCTGCAAA-GTTG
genomic: TTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAGgtattttttt ... cactttgcagGTCAGTGTGACTGGTGCAAATAGTGAGGCTGAAGCTGCAAAAGTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAGgtatttttttgtgtcaaggataaggatatttgcatcatgactgttgatttatgtgattgtgttcttttataatccaatattaatcctccacagttcttgt
- - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctccac