Sequence
atgc intronic sequence ATGC exonic sequence...ggaggacttagaaaattaatcttcttgagaaagacttttctcatatagaacctttcattgactgcagctgagatgttcctggggcattgcatttctgcagTGTTGAAGAAGACATGGTTGATGGCTTCCCATTTGAAGTACCTGAGGAATACCAAAATATGCCTTTATTGAAGGGGAGAGCAGCAGTGGATATGAAGGTC
Basic information
species | Glycine max |
transcript | GLYMA13G23850.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G23850.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os08g29370.1 (Oryza sativa), 3'ss of exon 3
ggaggacttagaaaattaatcttcttgagaaagacttttctcatatagaacctttcattgac--tgcagctgagatgttcctggggcattgcatttctgcagTGTTGAAGAAGACATGGTTGATGGCTTCCCATTTGAAGTACCTGAGGAATACCAAAATATGCCTTTATTGAAGGGGAGAGCAGCAGTGGATATGAAGGTC
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ataaaataactgtgagcactcttat--ggaagggctcttctcatttataccttgtcattgactctgcagctgagatcttcctgggacattgcatttctgcagTGTAGAAGAAGATATGGTCGATGGATTCCCCTATGAAGTGCCAGAAGAATACAGCAGCATGCCTCTTCTCAAAGGAAGGGCTACCGTGGACATGAAGGTT
upper sequence: GLYMA13G23850.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G015967_T01 (Zea mays), 3'ss of exon 3
ggaggacttagaaaattaatcttcttgagaaagacttttctcatatagaacctttcattgac--tgcagctgagatgttcctggggcattgcatttctgcagTGTTGAAGAAGACATGGTTGATGGCTTCCCATTTGAAGTACCTGAGGAATACCAAAATATGCCTTTATTGAAGGGGAGAGCAGCAGTGGATATGAAGGTC
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--actaaatagctgtaagaactgttatgaaacagctcttctcatttataccttgtcattgactctgcagctgagatcttcctgggacattgcatttctgcagTGTAGAAGAAGACATGGTCGATGGCTTTCCCTTTGAAATACCAGAAGAGTACAGCAACATGCCTCTTCTCAAAGGAAGAGCTACTGTGGATATGAAGGTT
upper sequence: GLYMA13G23850.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0066g01410.t01 (Vitis vinifera), 3'ss of exon 3
ggaggacttaga-aaattaatcttcttgagaaagacttttctcatatagaacctt-tcattgactgcagctgagatgttcctggggcattgcatttctgcagTGTTGAAGAAGACATGGTTGATGGCTTCCCATTTGAAGTACCTGAGGAATACCAAAATATGCCTTTATTGAAGGGGAGAGCAGCAGTGGATATGAAGGTC
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--aggacttgtacaagctaatcctcttaaaataatatattctcatatatacccttgtcattgactgcagctgagatcttcctggggcattgcatttctgcagTGTTGAAGAGGATATGGTGGATGGCTTCCCATACGAAGTGCCTGAAGAATACCAAAACATGCCTCTCTTGAAGGGGAGGGCAACCGTGGATATGAAGGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaacctttcattgactgcagctgagatgttcctggggcattgcatttctgcagTGTTGAAGAAGACATGGTTGATGGCTTCCCATTTGAAGTACCTGAGGAATACCAAAATATGCCTTTATTGAAGGGGAGAGCAGCAGTGGATATGAAGGTC
cattgac putative branch site (score: 3)
catttct putative PPT
tttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggaggacttagaaaattaatcttcttgagaaagacttttctcatatagaacctttcattgactgcagctgagatgttcctggggcattgcatttctgcagTGTTGAAGAAGACATGGTTGATGGCTTCCCATTTGAAGTACCTGAGGAATACCAAAATATGCCTTTATTGAAGGGGAGAGCAGCAGTGGATATGAAGGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA