Sequence
atgc intronic sequence ATGC exonic sequence...gataatataaaagtatctgactaattatacacacatagttgcctgctgttctttatgcttggaatatattggtcgacgtgtcttacttacttcgtggcagAAGTTACACACTGTAAGCAGGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCG
Basic information
species | Glycine max |
transcript | GLYMA13G25690.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G25690.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G171745_T02 (Zea mays), 3'ss of exon 7
gataatataaaagtatctgactaattatacacacatagttgcctgctgttctttatgcttggaatatattggtcgacgtgtcttacttacttcgtggcagAAGTTACACACTGTAAGCAGGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCG---------
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------ttattattattt--ttcagtgttcatataatggcagctactgtatt---------aaatagtgttgccgaaccatgtttcttacttgatggcagaagttaaacaatttaagCAGGCAGACATTGACTTACGGGGGCATGACGAGTTTCTCTCTGAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG
upper sequence: GLYMA13G25690.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G171745_T05 (Zea mays), 3'ss of exon 6
---gataatataaaagtatctgactaattatacacacatagttgcctgctgttctttatgcttggaatatattggtcgacgtgtcttacttacttcgtggcagAAGTTACACACTGTAAGCAGGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCG
| | | | | | | | || || | | | || | | | | | |||| | | ||| | || ||||||| |||||||||||| ||| | ||||||||| ||||| ||||| | |||||||| ||| | |||||||||||| ||| | ||||||| |||||| || || |||
ctgccttctgtttagatttattattatttttcagtgttcatataatggcagctact---gtattaaatagtgttgccgaaccatgtttcttacttgatggcagAAGTTAAACAATTTAAGCAGGCAGACATTGACTTACGGGGGCATGACGAGTTTCTCTCTGAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCG
upper sequence: GLYMA13G25690.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G171745_T04 (Zea mays), 3'ss of exon 7
gataatataaaagtatctgactaattatacacacatagttgcctgctgttcttta-tgcttggaatatattggtcgacgtgtcttacttacttcgtggcagAAGTTACACACTGTAAGCAGGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCG---------
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---------------------ttattatttttcagtgttcatataatggcagctactgtattaaatagtgttgccgaaccatgtttcttacttgatggcagaagttaaacaatttaagcagGCAGACATTGACTTACGGGGGCATGACGAGTTTCTCTCTGAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG
upper sequence: GLYMA13G25690.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0021g01580.t01 (Vitis vinifera), 3'ss of exon 7
gataatataaaagtatctgactaattatacacacatagttgcctgctgttctttatgcttggaatatattggtcgacgtgtcttacttacttcgtggcagAAGTTACACACTGTAAGCAGGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCG---------
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----------------ttgaa-atgtgcagacatataaaaatgagttattcaa-atgct-gggatatgttggtcgat-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|14258860|gb|BG881768.1|BG881768EST: GGAAGGATGTGGAAGAGAAGGTAGAAGAAGTAAAGAAGTCCATTTTCAAG AAGTTACACACTGTAAGCAGGCCGACATCGACTTCAGAGGGCATGAGGAGA
genomic: GGAAGGATGTGGAAGAGAAGGTAGAAGAAGTAAAGAAGTCCATTTTCAAGgtgggttggt ... ttcgtggcagAAGTTACACACTGTAAGCAGGCCGACATCGACTTCAGAGGGCATGAGGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgttctttatgcttggaatatattggtcgacgtgtcttacttacttcgtggcagAAGTTACACACTGTAAGCAGGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCG
tacttac putative branch site (score: 1)
cttacttc CT-rich tract
aatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gataatataaaagtatctgactaattatacacacatagttgcctgctgttctttatgcttggaatatattggtcgacgtgtcttacttacttcgtggcagAAGTTACACACTGTAAGCAGGCCGACATCGACTTCAGAGGGCATGAGGAGATCTGCTCTGAATCTGGTGGAGTGATGGATTATGAAGAAGATCGAAGCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - ctgacta
- - - - - - - - - - - - - - acacaca
- - - - - - - - - - - - - - - - - - -gttgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtctt