Sequence
atgc intronic sequence ATGC exonic sequencegttggtagtagaattcctgtgatttcagttcttttcctggatgaaagatgccaatttgagcaatatgaacatctgtagtatatattttaatcttgcttcttacctgctttaatgttcataggatttgaatggatttaatttcttacttattttgtgcctcatgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTGATGAATGGTTATGCTCTAAATACTGGCCGTGCTGCTCAAGGAATGCCTC
Basic information
species | Glycine max |
transcript | GLYMA05G29870.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G29870.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 8
gttggtagtagaattcctgtgatttcagttcttttcctggatgaaagatgccaatttgagcaatatgaacatctgtagtatatattttaatcttgcttcttacctgctttaatgttcataggatttgaatggatttaatttcttacttattttgtgcctcatgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTGATGAATGGTTATGCTCTAAATACTGGCCGTGCTGCTCAAGGAATGCCTC
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-----------------------------------------------------------------gttatttctctaaaa-gtacttcgcaataaccattttttgatttttatattaacaaaatcgacagaaatttg--ctggtaactatagctcatctgat-ctgcagAGCATTAATATTTTGAAAGCCCATGGTAAAAGTGCCAAGGACAGTTACCTGCTGAATGGGTATGCACTAAACACAGGCCGTGCAGCTCAAGGAATGCCTA
upper sequence: GLYMA05G29870.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G039263_T02 (Zea mays), 3'ss of exon 6
gttggtagtagaattcctgtgatttcagttcttttcctggatgaaagatgccaatttgagcaatatgaacatctgtagtatatattttaatcttgcttcttacctgctttaatgttcataggatttgaatggatttaatttcttacttattttgtgcctcatgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTGATGAATGGTTATGCTCTAAATACTGGCCGTGCTGCTCAAGGAATGCCTC
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-------------------------------------------------------------------------------gtcagttaaattcgtaagccttaaccatt---atgct-agaggccct---ttcgcttagcttgtaactataattttatctgat-ctgcagAGCATCAATATTTTGAAAGCTCATGGTAAAAGCGCCAAGGATAGTTATCTGTTGAATGGCTATGCACTAAACACAGGCCGTGCAGCTCAAGGAATGCCTA
upper sequence: GLYMA05G29870.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G110626_T01 (Zea mays), 3'ss of exon 8
gttggtagtagaattcctgtgatttcagttcttttcctggatgaaagatgccaatttgagcaatatgaacatctgtagtatatattttaatcttgcttcttacctgctttaatgttcataggatttgaatggatttaatttcttacttattttgtgcctcatgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTGATGAATGGTTATGCTCTAAATACTGGCCGTGCTGCTCAAGGAATGCCTC
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----------------------------------------------------------------ctgatcatc-gtttaatctccttggtttttg--tgttaactattcttatcatcg-aacttttctataagtttagcttgtaactactgttttatctgat-ctgcagAGCATCAATATTTTGAAAGCTCATGGTAAAAGCGCCAAGGATAGTTACCTGCTAAATGGCTATGCACTAAACACAGGCCGTGCAGCTCAAGGAATGCCTA
upper sequence: GLYMA05G29870.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G20050.1 (Arabidopsis thaliana), 3'ss of exon 8
gttggtagtagaattcctgtgatttcagttcttttcctggatgaaagatgccaatttgagcaatatgaacatctgtagtatatattttaatcttgcttcttacctgctttaatgttcataggatttgaatggatttaatttcttacttattttgtgcctcatgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTGATGAATGGTTATGCTCTAAATACTGGCCGTGCTGCTCAAGGAATGCCTC
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----------------------------------------------------------------------gtctgtta-atgcttctctgtcaaagtttcaa---acataaagatctgtagtgaggatgatatttttatgcttaaacgcttattcttaccgcattgtagGGCATTAATATTCTGAAAGCTCATGGACAAAGTGCAAGAGACAGCTATTTGTTAAATGGATATGCACTCAATACTGGTCGTGCTGCCCAAGGGATGCCAT
upper sequence: GLYMA05G29870.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0021g02230.t01 (Vitis vinifera), 3'ss of exon 8
gttggtagtagaattcctgtgatttcagttcttttcctggatgaaagatgccaatttgagcaatatgaacatctgtagtatatattttaatcttgcttcttacctgctttaatgttcataggatttgaatggatttaatttcttacttattttgtgcctcatgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTGATGAATGGTTATGCTCTAAATACTGGCCGTGCTGCTCAAGGAATGCCTC
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--------------------------------------------------------------ccatgctaaactataaca-gttcattaa-ctcactaattggcgttagttat-cttgcatgtttttcagatatctgagttg--gcttgttttttgct--atattacagGGAATTAATATTTTGAAAGCTCATGGAAAAAGTGCAAAAGATAGCTACCTGTTGAATGGTTATGCTCTAAATACTGGCCGTGCGGCCCAAGGAATGCCTC
upper sequence: GLYMA05G29870.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ34091 (Selaginella moellendorffii), 3'ss of exon 8
gttggtagtagaattcctgtgatttcagttcttttcctggatgaaagatgccaatttgagcaatatgaacatctgtagtatatattttaatcttgcttcttacctgctttaatgttcataggatttgaatggatttaatttcttacttattttgtgcctcatgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTGATGAATGGTTATGCTCTAAATACTGGCCGTGCTGCTCAAGGAATGCCTC
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-----------------------------------------------------------------------------------------------------------------gtttgtcat-tgcccattgctgcaaattctgacgaatat--------gttttccagTCTATTAACATCTTGAAAGCTCACGGAAAGAGCGGGAAGGACAGCTATCTGTTAAATGGGTATGCTCTCAATACCGGACGTGCTGCACAAGGCATGCCACMapped 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|254334339|gb|GR844124.1|GR844124EST: AAGCTGTAAAAATGACCAATGCTCGAG-TGAAGTTAAATACCCAATCAAG GGAATCAATATCTTGAAAGCTCATGGAAAA-GTGCTAGAGACAGCTTTCTG
genomic: AAGCTGTAAAAATGACCAATGCTCGAGGTGAAGTTAAATACCCAATCAAGgttggtagta ... catgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcataggatttgaatggatttaatttcttacttattttgtgcctcatgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTGATGAATGGTTATGCTCTAAATACTGGCCGTGCTGCTCAAGGAATGCCTC
ttcttac putative branch site (score: 2)
atttaatttcttactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtagtagaattcctgtgatttcagttcttttcctggatgaaagatgccaatttgagcaatatgaacatctgtagtatatattttaatcttgcttcttacctgctttaatgttcataggatttgaatggatttaatttcttacttattttgtgcctcatgttccagGGAATCAATATCTTGAAAGCTCATGGAAAAAGTGCTAGAGACAGCTTTCTGATGAATGGTTATGCTCTAAATACTGGCCGTGCTGCTCAAGGAATGCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA