Sequence
atgc intronic sequence ATGC exonic sequencegtggggattcctattagttctggttcagttgttctatgttaactttgtccatcaccattatctaaggagctgaattgaggctcttatttgctttgttgttttagCTCTCTGTTGAAAGGCTTAGTTCAATGAAGAAATATGTCTTTGGATTAGGCTCTGCACAG
Basic information
species | Glycine max |
transcript | GLYMA09G39770.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39770.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 3'ss of exon 5
gtggggattcctattagttctggttcagttgttctatgttaactttgtccatcaccattatctaaggagctgaattgaggctcttatttgctttgttgttttagCTCTCTGTTGAAAGGCTTAGTTCAATGAAGAAATATGTCTTTGGATTAGGCTCTGCACAG
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----------------gtagaaactgagtttcttt---tagattctttccttaatcctcatgcagga---tatatcag----cttacc-attttttacctgcagCTTTCTGTGGAAAGGCTAAGCTCAATGAAGAAGTATGTCTTTGGGTTAGGCTCTGCTCAG
upper sequence: GLYMA09G39770.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G01790.1 (Arabidopsis thaliana), 3'ss of exon 5
gtggggattcctattagttctggttcagttgttctatgttaactttgtccatcaccattatctaaggagctgaattgaggctcttatttgctttgttgttttagCTCTCTGTTGAAAGGCTTAGTTCAATGAAGAAATATGTCTTTGGATTAGGCTCTGCACAG
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----------gtatta--tttgatatatgtgt---atgctacctttttgcttttgaactgtgtttggtagaagagccaatattttgtttatttctttgac--agCTATCTGTTGAAAGACTGAGTTCCATGAAGAAATATGTTTTTGGATTAGGCTCAGCTCAG
upper sequence: GLYMA09G39770.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 4
gtggggattcctattagttctggttcagttgttctatgttaactttgtccatcaccattatctaaggagctgaattgaggctcttatttgctttgttgttttagCTCTCTGTTGAAAGGCTTAGTTCAATGAAGAAATATGTCTTTGGATTAGGCTCTGCACAG
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gttaacttcagtatttgatatatat--gttgttcctttttcctttgatatgtgcttagtggaaagaagagccaatt---atttcgattctatttgtc-tgacagCTCTCTGTCGAAAGGCTTAGTTCCATGAAGAAATATGTTTTTGGATTAGGCTCCGCGCAG
upper sequence: GLYMA09G39770.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 3
gtggggattcc-tattagttctggttcagttgttctatgttaactttgtccatcaccattatctaagga--gctgaattgaggctcttatttgctttgt-tgttttagCTCTCTGTTGAAAGGCTTAGTTCAATGAAGAAATATGTCTTTGGATTAGGCTCTGCACAG
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--gtggactccataaaatctttatttctttttttatttgttaatctaagacaatgatgttctttataaatgaataaaaaaaaaattgaaccttctgtctgcattgcagCTATCTGTTGAAAGGCTGAGTTCCATGAAGAAATATGTTTTTGGATTGGGCACTGCTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcaccattatctaaggagctgaattgaggctcttatttgctttgttgttttagCTCTCTGTTGAAAGGCTTAGTTCAATGAAGAAATATGTCTTTGGATTAGGCTCTGCACAG
ctttgtt CT-rich tract
attatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggggattcctattagttctggttcagttgttctatgttaactttgtccatcaccattatctaaggagctgaattgaggctcttatttgctttgttgttttagCTCTCTGTTGAAAGGCTTAGTTCAATGAAGAAATATGTCTTTGGATTAGGCTCTGCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA