Sequence
atgc intronic sequence ATGC exonic sequenceTTTGGCTGATATGGGTGCTAGAGTTGGTCTATTTGATGCTGATGTTTATGGTCCAAGCTTACCGACTATGGTCTCTCCTGAAAACCGACTGTTAGTAATGgtatgatctgataaaccaattttttctttttaatatttagttgattgagtactgcaaacataattgttcagattcttgctgcag
Basic information
species | Glycine max |
transcript | GLYMA07G09820.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09820.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g52170.1 (Oryza sativa), 5'ss of exon 6
TTTGGCTGATATGGGTGCTAGAGTTGGTCTATTTGATGCTGATGTTTATGGTCCAAGCTTACCGACTATGGTCTCTCCTGAAAACCGACTGTTAGTAATGgtatgatctgataaaccaattttttctttttaatatt--tagttg-attgagtactgcaaacataattgttcagattcttgctgcag
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ATTAGCTGGTATGGGGGCCAGGGTTGGAATATTTGATGCTGATGTCTTCGGTCCGAGCTTACCAACTATGGTTTCTCCTGAAAACCGGCTGCTAGTGATGgtaag--ctgattgaataattgtgttaacaaaaaattagtggttgcactaataatggtaaacagatttacctttag-----------
upper sequence: GLYMA07G09820.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G129208_T01 (Zea mays), 5'ss of exon 5
TTTGGCTGATATGGGTGCTAGAGTTGGTCTATTTGATGCTGATGTTTATGGTCCAAGCTTACCGACTATGGTCTCTCCTGAAAACCGACTGTTAGTAATGgtatga-tctgataaaccaattttttctttttaatatttagttgattgagtactgcaaacataattgttcagattcttgc-tgcag
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ACTAGCTGGGATGGGAGCTCGGGTTGGAATCTTTGATGCTGACGTCTTTGGCCCAAGCTTACCGACTATGGTTTCTCCTGAAAACCGGTTGCTAGTGATGgtacacctcctatgaacc------tctatgttagcatgaaatt--ttgtac-ctgcactaataatggtaaacagacttacctttag
upper sequence: GLYMA07G09820.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G24430.1 (Arabidopsis thaliana), 5'ss of exon 5
TTTGGCTGATATGGGTGCTAGAGTTGGTCTATTTGATGCTGATGTTTATGGTCCAAGCTTACCGACTATGGTCTCTCCTGAAAACCGACTGTTAGTAATGgtatgatctgataaaccaattttttctttttaatatttagttgattgagtactgcaaacataattgttcagattcttgctgcag
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ATTAGCTGGTATGGGTGCTAGAGTTGGTATCTTTGATGCTGATGTCTATGGTCCAAGTCTACCAACCATGGTCAATCCTGAGAGCCGTATATTGGAAATGgtaatattctctga-ctcaccttgtgatagcagtaac-acacaaaggactaatgtttttcgagttctgtatatgttcaatag--
upper sequence: GLYMA07G09820.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv11s0016g04250.t01 (Vitis vinifera), 5'ss of exon 5
TTTGGCTGATATGGGTGCTAGAGTTGGTCTATTTGATGCTGATGTTTATGGTCCAAGCTTACCGACTATGGTCTCTCCTGAAAACCGACTGTTAGTAATGgtatgatctgataaaccaattttttctttttaatatttagttgattgagtactgcaaacataattgttcagattcttgctgcag
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TCTGGCCGGTATGGGCGCTAGAGTTGGAATCTTTGATGCTGATGTCTATGGTCCAAGTTTACCAACAATGGTCTCCCCTGAAAATAGGCTGCTAGAAATGgtagtattc--caagtttttgattagctttccatgt---attgat--ggtgctgtgcttacaaccatgaaaatcttctttag--
upper sequence: GLYMA07G09820.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ08337 (Selaginella moellendorffii), 5'ss of exon 5
TTTGGCTGATATGGGTGCTAGAGTTGGTCTATTTGATGCTGATGTTTATGGTCCAAGCTTACCGACTATGGTCTCTCCTGAAAACCGACTGTTAGTAATGgtatgatctgataaaccaattttttctttttaatatttagttgattgagtactgcaaacataattgttcagattcttgctgcag
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CCTGGCGGGAATGGGAGCCAAAGTTGGAATTTTCGACGCTGATGTTTATGGGCCAAGCTTGCCGACAATGGTGTCTCCAGAGCTGCGGGTGTTGCAAATGg--tgaggtagtaagtc--ttcatcactttcttcatttcatttact---tccaagggatttcattgaagtttctgttgctatagMapped 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|51345383|gb|CO986116.1|CO986116EST: GTCCAAGCTTACCGACTATGGTCTCTCCTGAAAACCGACTGTTAGTAATG AATCCAGAGAAGAAGACCATAATTCCTACTGAATACTTGGGAGTAAAGTTG
genomic: GTCCAAGCTTACCGACTATGGTCTCTCCTGAAAACCGACTGTTAGTAATGgtatgatctg ... cttgctgcagAATCCAGAGAAGAAGACCATAATTCCTACTGAATACTTGGGAGTAAAGTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGGCTGATATGGGTGCTAGAGTTGGTCTATTTGATGCTGATGTTTATGGTCCAAGCTTACCGACTATGGTCTCTCCTGAAAACCGACTGTTAGTAATGgtatgatctgataaaccaattttttctttttaatatttagttgattgagtactgcaaacataattgttcagattcttgctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT