Sequence
atgc intronic sequence ATGC exonic sequence...tttgtatgtaaaaaggcaaataaaaactcttatgtatattttatgaataaatattaaatatttaagtttaacacaatgtttgttttgataaaatttgtagGTGGTCACTTGGAGCTATTATGTATGAAATGTTAGTGGGATATCCACCTTTTTATTCTGATGATCCAATGTCAACATGCAGGAAG
Basic information
species | Glycine max |
transcript | GLYMA03G32160.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G32160.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 3'ss of exon 6
tttgtatgtaaaaaggcaaataaaaactcttatgtatattttatga-ataaatattaaatatttaagtttaacacaatgtttgttttgataaaatttgtagGTGGTCACTTGGAGCTATTATGTATGAAATGTTAGTGGGATATCCACCTTTTTATTCTGATGATCCAATGTCAACATGCAGGAAG
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---------------gtaagcatcg-tttacataaatatctcgtgccatggacctcttgagtttgcagtaaagaaattgaataatttca---actatctagGTGGTCACTTGGAGCAATCATGTATGAAATGCTAGTGGGCTATCCCCCATTCTATTCTGATGAGCCTATGACAACTTGCAGAAAG
upper sequence: GLYMA03G32160.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 6
-----tttgtatgtaaaa-aggcaaataaaaactcttatgtatattttatgaataaatattaaatatttaagtttaacacaatgtttgttttgataaaatttgtagGTGGTCACTTGGAGCTATTATGTATGAAATGTTAGTGGGATATCCACCTTTTTATTCTGATGATCCAATGTCAACATGCAGGAAG
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agatccttggaactaaaacagagtgatttaaattattatggaaagtca--gaacactccttaattttttccagaccaaattatgattcttttatt----tccacagGTGGTCACTTGGTGCTATCATGTATGAAATGCTTGTGGGGTATCCACCTTTTTATTCTGATGATCCCATGTCAACATGTAGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataaatattaaatatttaagtttaacacaatgtttgttttgataaaatttgtagGTGGTCACTTGGAGCTATTATGTATGAAATGTTAGTGGGATATCCACCTTTTTATTCTGATGATCCAATGTCAACATGCAGGAAG
atattaaatatttaag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtatgtaaaaaggcaaataaaaactcttatgtatattttatgaataaatattaaatatttaagtttaacacaatgtttgttttgataaaatttgtagGTGGTCACTTGGAGCTATTATGTATGAAATGTTAGTGGGATATCCACCTTTTTATTCTGATGATCCAATGTCAACATGCAGGAAG
- tgtatgt
- - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacaatg