Sequence
atgc intronic sequence ATGC exonic sequence...acatagtgacataacattatttgaaatttaggttaacataaaatttaaatacttcatagttcttaaattttttgcataatttcttgtaatacttttgtagGTTGAGAAAATTTTTGGCCCAGGAAACCAATATGTCACAGCTGCAAAAATGATACTACAA
Basic information
species | Glycine max |
transcript | GLYMA08G08630.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g13190.1 (Oryza sativa), 3'ss of exon 8
----acatagtgaca-taacattatttgaaatttaggttaacataaaatttaaatacttcatagttcttaaattttttgcataatttcttgtaatacttttgtagGTTGAGAAAATTTTTGGCCCAGGAAACCAATATGTCACAGCTGCAAAAATGATACTACAA
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aatgctttagttgcactagtatttttctgtactcatttattcataa----caattgtgtcatttccattatttgtggtgatcaacttat-atactgtctttgtagGTTGAAAAAATATTTGGACCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTTCAG
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G63890.1 (Arabidopsis thaliana), 3'ss of exon 7
--------------------------acatagtgacataacattatttgaaatttaggttaacataaaatttaaatacttca---tagttcttaaattttttgc-ataatttcttgtaatac----ttttgt----agGTTGAGAAAATTTTTGGCCCAGGAAACCAATATGTCACAGCTGCAAAAATGATACTACAA
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gtgtgtctgtgttagttttttttcgcttatgttttcatgctggtgattgtattttttctctcta-agattgtagacatttcgattttgttttgcagGCTATAGCTGCCATGGCCTGGGGGACAGATTCTTGTCCAAAGGTTGAGAAGATTTTTGGTCCTGGGAACCAGTATGTCACAGCTGCTAAGATGATTCTTC--
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0166g00300.t01 (Vitis vinifera), 3'ss of exon 10
-acatagtgacataac--attatttgaaatttaggttaacataaaatttaaatacttcatagttcttaaattttttgcataatttcttgtaatacttttgtagGTTGAGAAAATTTTTGGCCCAGGAAACCAATATGTCACAGCTGCAAAAATGATACTACAA
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ctttgagttacttcatcaaagatgtagtattttaattagtttt--gcttggctgcatcagaaatgacatccagttctaagtgtatttagtcataattt-gcagGTGGAAAAGATTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatacttcatagttcttaaattttttgcataatttcttgtaatacttttgtagGTTGAGAAAATTTTTGGCCCAGGAAACCAATATGTCACAGCTGCAAAAATGATACTACAA
tactttt CT-rich tract
ttaaattttttgcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acatagtgacataacattatttgaaatttaggttaacataaaatttaaatacttcatagttcttaaattttttgcataatttcttgtaatacttttgtagGTTGAGAAAATTTTTGGCCCAGGAAACCAATATGTCACAGCTGCAAAAATGATACTACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC