Sequence
atgc intronic sequence ATGC exonic sequence...ctagtaccagtttttaaatataaatatttgtaggcttctgatgaatagtgtttcttctctgttcatgctttcaaactatttaaatacatgatttcttcagATATGGTCAAGAATAAAGGCTTCTTGCCATCGGGACCTTCAGAAATACATATACAAAGATATCAAATCAAGGATATTATTAATAGTTTGCTCAATGCATG
Basic information
species | Glycine max |
transcript | GLYMA09G38830.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G38830.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g00050.t01 (Vitis vinifera), 3'ss of exon 4
ctagtaccagtttttaaatataaatatttgtaggcttctgatgaatagtgtttcttctctgttcatgctttcaaactatttaaatacatgatttcttcagATATGGTCAAGAATAAAGGCTTCTTGCCATCGGGACCTTCAGAAATACATATACAAAGATATCAAATCAAGGATATTATTAATAGTTTGCTCAATGCATG
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taattataacttttcctggtgaagtttatttattttttcaattggcataacttgatacttgaactttattatttactttatattaagttcatgtttgcagATATGGTCAAGAATAAAGGCTTCTTACCATCAGATCCATCAGAAATACCAATCCAGAGAGGTCAAATTAAGGAGATTGTATGCTCTTTACTTCCAGCATG
upper sequence: GLYMA09G38830.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S159_62V6.1 (Physcomitrella patens), 3'ss of exon 5
------ctagtaccagtttt-taaatataaatatttgtaggcttctgatgaatagtgtttcttctctgttcatgctttcaaactatttaaatacatgatttcttcagATATGGTCAAGAATAAAGGCTTCTTGCCATCGGGACCTTCAGAAATACATATACAAAGATATCAAATCAAGGATATTATTAATAGTTTGCTCAATGCATG
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tatttaagaatagtgattttgttgttttccatgttatgaatatctttatcgagaatatattatttccga--acgctattgaatcatgtg-----gtggtgttgacagACATGGTGAAAAATAAAGGCTTCTTGCCCTCTGGACCTTCTGAAATTTCAGTGCAGCGGAAACAAATCAAATCTATTGTGTACTCCCTATTGGATGCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtgtttcttctctgttcatgctttcaaactatttaaatacatgatttcttcagATATGGTCAAGAATAAAGGCTTCTTGCCATCGGGACCTTCAGAAATACATATACAAAGATATCAAATCAAGGATATTATTAATAGTTTGCTCAATGCATG
tttcttc CT-rich tract
aaactatttaaataca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctagtaccagtttttaaatataaatatttgtaggcttctgatgaatagtgtttcttctctgttcatgctttcaaactatttaaatacatgatttcttcagATATGGTCAAGAATAAAGGCTTCTTGCCATCGGGACCTTCAGAAATACATATACAAAGATATCAAATCAAGGATATTATTAATAGTTTGCTCAATGCATG
- - - - - - - -aaatataa
- - - - - - - - - - - - - - - - -gcttctg