Sequence
atgc intronic sequence ATGC exonic sequence...ctaattatacacacatagttgcctgctgttctttatgcttggaatatattggtcgacgtgtcttacttacttcgtggcagaagttacacactgtaagcagGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCGACCAAAGAG
Basic information
species | Glycine max |
transcript | GLYMA13G25690.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G25690.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G171745_T02 (Zea mays), 3'ss of exon 7
--ctaattatacacacatagttgcctgctgttcttta-tgcttggaatatattggtcgacgtgtcttacttacttcgtggcagaagttacacactgtaagcagGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCGACCAAAGAG
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ttattattatttttcagtgttcatataatggcagctactgtattaaatagtgttgccgaaccatgtttcttacttgatggcagaagttaaacaatttaagCAGGCAGACATTGACTTACGGGGGCATGACGAGTTTCTCTCTGAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG
upper sequence: GLYMA13G25690.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G171745_T05 (Zea mays), 3'ss of exon 6
-------------------ctaattatacacacatagttgcctgctgttcttta-tgcttggaatatattggtcgacgtgtcttacttacttcgtggcagaagttacacactgtaagcagGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCGACCAAAGAG
| ||||| | | | || || || | |||| | | ||| | || ||||||| |||||||||||| ||| | ||||||||| ||||| ||||| | |||||||| ||| | |||||||||||| ||| | ||||||| |||||| || || |||
ctgccttctgtttagatttattattatttttcagtgttcatataatggcagctactgtattaaatagtgttgccgaaccatgtttcttacttgatggcagAAGTTAAACAATTTAAGCAGGCAGACATTGACTTACGGGGGCATGACGAGTTTCTCTCTGAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCG---------
upper sequence: GLYMA13G25690.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G171745_T04 (Zea mays), 3'ss of exon 7
ctaattatacacacatagttgcctgctgttcttta-tgcttggaatatattggtcgacgtgtcttacttacttcgtggcagaagttacacactgtaagcagGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCGACCAAAGAG
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-ttattatttttcagtgttcatataatggcagctactgtattaaatagtgttgccgaaccatgtttcttacttgatggcagaagttaaacaatttaagcagGCAGACATTGACTTACGGGGGCATGACGAGTTTCTCTCTGAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG
upper sequence: GLYMA13G25690.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0021g01580.t01 (Vitis vinifera), 3'ss of exon 7
-ctaattatacacacatagttgcctgctgttctttatgcttggaatatattggtcgacgtgtcttacttacttcgtggcagaagttacacactgtaagcagGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCGACCAAAGAG
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ttgaaatgtgcagacatataaaaatgagttattcaaatgctgggatatgttggtcgat-tgtcttacttacgttgtggcagaagttacacactgtaagcagGCCGACATTGACTTCCGAGGGCACGAGGAGATCTACTCTGAACCTGGTGGAGTGATGGACTACGAGGAAGATCGAAGCCGACCCAAGAGMapped 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|4260349|gb|AI416845.1|AI416845EST: GGAAGGATGTGGAAGAGAAGGTAGAAGAAGTAAAGAAGTCCATTTTCAAG GCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGA
genomic: GGAAGGATGTGGAAGAGAAGGTAGAAGAAGTAAAGAAGTCCATTTTCAAGgtgggttggt ... ctgtaagcagGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGA
EST:
gi|120531028|gb|EH259161.1|EH259161EST: AAGTAAAGAAGTCCATTTTCAAG GCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGA
genomic: AAGTAAAGAAGTCCATTTTCAAGgtgggttggt ... ctgtaagcagGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattggtcgacgtgtcttacttacttcgtggcagaagttacacactgtaagcagGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCGACCAAAGAG
tacttac putative branch site (score: 1)
ttactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaattatacacacatagttgcctgctgttctttatgcttggaatatattggtcgacgtgtcttacttacttcgtggcagaagttacacactgtaagcagGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCGACCAAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - acacaca
- - - - - - - - - - - ctgctgt
- - - - - - - - - - - - - - - - - -tgcttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcgtg