Sequence
atgc intronic sequence ATGC exonic sequence...agagatgtgggggaatgtatttcattcaaatcaatatctcctaattttcaaaacattctagtttgttgaaactgtttgtgtttgcgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAGTTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
Basic information
species | Glycine max |
transcript | GLYMA02G00510.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 16
-------------------------------------------------------------------------------------------agagatgtgggggaatgtatttc-attca--aatcaatatctcctaatt---ttcaaaacattctagtt-tgttgaaactgtttgtgtttgcgagaaatttgaac-agGGATGGTGTAAGTGAAGGGCAGTTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
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gtatgctactgcaaatactgtttataaactaacgtttgtagagtacagtagttagatatttgtggaatcaatttaatcctatgtatcttcaacaagtactgaacctagtgtttttgttcgctatttgaagtatgaaagttgctgttataggcttctatttgtatatctgctaatagtatcggtactgcttctcttctagGGATGGTGTCAGTGAAGGCCAATTCTACCAAGTTCTCCTCTATGAGTTGGATGCTATCCGCAAG
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 16
lower sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 16
agagatgtgggggaatgtat-ttcattcaaatcaatatctcctaattttcaaaacattctagtttgttgaaactgtttgtgtttgcgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAGTTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
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------gtaagtctctctttgctcatttaagtaaaagaattata---tctaaaac-ccacaattagttctca-tggttgtttt--------attcgcgcagTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 14
agagatgtgggggaatgtatttcattcaaatcaatatctcctaattttcaaaacattctagtttgttgaaactgtttgtgtttgcgaga----aatttgaacagGGATGGTGTAAGTGAAGGGCAGTTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
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--ggatctctatgtgcagtgtcctcacaaattactgcatgtgcatcattaagctcttttcata-gttacaatt-cttatcctgatcagatattaatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcaaaacattctagtttgttgaaactgtttgtgtttgcgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAGTTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
aaatttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agagatgtgggggaatgtatttcattcaaatcaatatctcctaattttcaaaacattctagtttgttgaaactgtttgtgtttgcgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAGTTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
- - - gtggggg
- - - - - - - - - - - cattcaa
- - - - - - - - - - - - - - - - - - - - - - - - -aaaacatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgc