Sequence
atgc intronic sequence ATGC exonic sequence...gtcttttatatatatatatatatatatatatatatatatatatatatattagttgattattgtagatggttttgatcgatgggtgattttgcatttacagGGAAAAGTTGCTTTTGTTTCAGCATATGGGATTCACCAGCTCCATATATTCATCTTTGTGCTAGCCATTTTTCATATCCTGCAATGCATTGTAACACTGA
Basic information
species | Glycine max |
transcript | GLYMA02G07110.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G07110.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0019g04060.t01 (Vitis vinifera), 3'ss of exon 3
gtcttttatatatatatatatatatatatatatatatatatatatatattagttgattattgtagatggttttgatcgatgggtg-attttgcatt---------tacagGGAAAAGTTGCTTTTGTTTCAGCATATGGGATTCACCAGCTCCATATATTCATCTTTGTGCTAGCCATTTTTCATATCCTGCAATGCATTGTAACACTGA
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---------gtaattaagttcatata-atttctatat-tatat-taagccttctgacttccagaaatattattgactgaaaaaggtgtttcccaccctcttttcctgcagGGAAAAGTCCCATTAGTGTCTTCCTATGGGATCCATCAACTCCATATATTCATCTTTGTGTTAGCTCTCTTTCATGTGATTTACTGTGTGGCCACCTTGG
upper sequence: GLYMA02G07110.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0019g04070.t01 (Vitis vinifera), 3'ss of exon 3
gtcttttatatatatatatatatatatatatatatatatatatatatattagttgattattgtagatggttttgatcgatgggtgattttgcatttacagGGAAAAGTTGCTTTTGTTTCAGCATATGGGATTCACCAGCTCCATATATTCATCTTTGTGCTAGCCATTTTTCATATCCTGCAATGCATTGTAACACTGA
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gtaagttcataaaatttctatct-tacatatatgaatccttctgaattccag--aaatattgactgaaaaggtgtttcccaccctctttttcagTCA---GGAAAAGTCCCATTTGTGTCTTACTATGGGATCCATCAGCTCCATATATTTATCTTTGTGCTAGCTCTCTTTCATGTGATCTACTGCGTGGCCACCT--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattagttgattattgtagatggttttgatcgatgggtgattttgcatttacagGGAAAAGTTGCTTTTGTTTCAGCATATGGGATTCACCAGCTCCATATATTCATCTTTGTGCTAGCCATTTTTCATATCCTGCAATGCATTGTAACACTGA
ttttgat putative branch site (score: 4)
ttgattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcttttatatatatatatatatatatatatatatatatatatatatattagttgattattgtagatggttttgatcgatgggtgattttgcatttacagGGAAAAGTTGCTTTTGTTTCAGCATATGGGATTCACCAGCTCCATATATTCATCTTTGTGCTAGCCATTTTTCATATCCTGCAATGCATTGTAACACTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgggtga