Sequence
atgc intronic sequence ATGC exonic sequencegtatctttttgttaactctcattatttgagatggatttgtagtttccatttcacctcaccatcattggcaaaatgggaaagtttctgcaatgctgtttaggttgaatccttttatgttgctcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACCCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG
Basic information
species | Glycine max |
transcript | GLYMA09G34830.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G34830.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os10g02980.1 (Oryza sativa), 3'ss of exon 8
gtatctttttgttaactctcattatttgagatggatttgtagtttccatttcacctcaccatcattggcaaa--atgggaaagtttctgcaatgctgtttaggttgaatccttttatgttgctcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACCCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG
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--------------------------------------------------gtatcaaatagttgaagaaaaattatggaataatttcttcgatggtcttt----ttaatgtgctgat-tggttga--acagGATCTGCGGTTGGCTTCAGATTAGACAGTCTTCTTAAATTATCAGATACTCGAGCTAGAAACAACAAGATGACACTAATGCATTATTTATGCAAG
upper sequence: GLYMA09G34830.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G31810.1 (Arabidopsis thaliana), 3'ss of exon 12
gtatctttttgttaactctcattatttgagatggatttgtagtttccatttcacctcaccatcattggcaaaatgggaaagtttctgcaatgctgtttaggttgaatccttttatgttgctcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACCCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG
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---------------------------------------------gtatcatattttcctattgatttcaaatttgata---ttctgaaag--catctgctcataatgcctttgtgttg-------cagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG
upper sequence: GLYMA09G34830.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv02s0033g01360.t01 (Vitis vinifera), 3'ss of exon 12
gtatctttttgttaactctcattatttgagatggatttgtagtttccatttcacctcaccatcat-tggcaaaatgggaaagtttctgcaatgctgtttaggttgaatccttttatgttgctcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACCCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG
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--------------------------------------gtaatgtctattcaactttgtaaatacatcttttgatgcttttcttgacatagagcttcttagcttacagccccttttcct-tatactgcagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggaaagtttctgcaatgctgtttaggttgaatccttttatgttgctcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACCCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG
ttttatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctttttgttaactctcattatttgagatggatttgtagtttccatttcacctcaccatcattggcaaaatgggaaagtttctgcaatgctgtttaggttgaatccttttatgttgctcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACCCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA