Sequence
atgc intronic sequence ATGC exonic sequence...tttacttggtaaagactgaataatcttgaactcttcaatcagcatatttcattttatttgttttataggttagactgaaatgttatctttgtgcattcagATACGTGAAGCTGACATCTCTCGACTCTCTTTTGCGGTTGAGCTTGCTGAAGAATTTTATGGGAG
Basic information
species | Glycine max |
transcript | GLYMA02G16130.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g08400.1 (Oryza sativa), 3'ss of exon 6
tttacttggtaaagactgaataatcttgaactcttcaatcagcatatttcattttatttgttttataggt-tagactgaaatgttatctttgtgcattcagATACGTGAAGCTGACATCTCTCGACTCTCTTTTGCGGTTGAGCTTGCTGAAGAATTTTATGGGAG
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-----------------gtgtgtttctctggctcatgacatgctcacctccattctctcatttgatagctattaacttgact--tatcttgat-cat--agATTCGTGAAGCTGATATATCTAGACTCTCATTTGCTGTTGAAATTGCTGAAGAATTCTATGGAAG
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G38840.1 (Arabidopsis thaliana), 3'ss of exon 6
tttacttggtaaagactgaataatcttgaactcttcaatcagca-----tatttcattttatttgttttataggttaga-ctgaaatgttatctttgtgcattcagATACGTGAAGCTGACATCTCTCGACTCTCTTTTGCGGTTGAGCTTGCTGAAGAATTTTATGGGAG
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--tgtttagttagaagtatacaaatatggatgtgtaacagagtagctagtatttaaaagaacttcatctacaatttctctctctgatatgagctct---cat-cagATCCGTGAAGCTGATATTTCTCGGCTCTCCTTTGCTGTTGAGCTTGCGGAAGAATTTTATGGAAG
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0141g00110.t01 (Vitis vinifera), 3'ss of exon 6
--tttacttggtaaagactgaataatcttgaactcttcaatcagcatatttcattttatttgttttataggttagactgaaatg-ttatct--ttgtgcattcagATACGTGAAGCTGACATCTCTCGACTCTCTTTTGCGGTTGAGCTTGCTGAAGAATTTTATGGGAG
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ctcacatttggtgggttctttttatttt---aatttttaatttttgtgtgtgtgtgtgttc-ttggatat-taatattaatatgcttgtctggttgggtgttcagATTCGTGAAGCCGACATTTCTCGATTATCATTTGCTGTTGAGCTTGCTGAAGAATTCTATGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcattttatttgttttataggttagactgaaatgttatctttgtgcattcagATACGTGAAGCTGACATCTCTCGACTCTCTTTTGCGGTTGAGCTTGCTGAAGAATTTTATGGGAG
tctttgt CT-rich tract
attttatttgttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttacttggtaaagactgaataatcttgaactcttcaatcagcatatttcattttatttgttttataggttagactgaaatgttatctttgtgcattcagATACGTGAAGCTGACATCTCTCGACTCTCTTTTGCGGTTGAGCTTGCTGAAGAATTTTATGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - -gactgaa
- - - - - - - - - - - - - - - ctcttca