Sequence
atgc intronic sequence ATGC exonic sequence...attttatcctcctgctaattttttgatatctaatcatttagtttatatttttttcttattctggaaaattaagatattattcttcttctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
Basic information
species | Glycine max |
transcript | GLYMA02G17410.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 11
---------attttatcctcctgctaattttttgatatctaatcatttagtttatatttttttcttattctggaaaattaagatattattcttcttctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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acgtcatatattaaaaaacggaggtagtagttttgtagcca-taacatgctttcaatttattttct-ttataaatcatttgaatatt-----tgattgacctt--tcagGGGACCCAGTTATGGTTATCGAGGCAGAGTGATGCTTGCTTTTGAAGAAAATGGGTCTTCCAAAATTGGAGTTCGATTTGACAAGCAGATCCCTGATGGT
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 2
---------attttatcctcctgctaattttttgatatctaatcatttagtttatatttttttcttattctggaaaattaagatattattcttcttctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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aaatcagatattctttccccatatcacattttttctagc--accatattatattagtccaatacatatatttg----tttatataaattgcttgcttgatctc---cagGGGACCAAGTTATGGTTATCGAGGCAGAGTGATGCTTGCTTTTGAAGATAATGGATCCTCAAAAATTGGAGTCCGATTTGACAAGCAGATCCCTGATGGT
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G126453_T01 (Zea mays), 3'ss of exon 6
attttatcctcctgctaattttttgatatctaatcatttagtttatatttttttcttattctggaaaattaagatattattcttcttctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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atgatacattctttcttctgatgacattacttttttctccagcaaccattttaattcaatacatgcattcatttttataaattgtttgattgatctttagGGGACCAAGTTATGGTTATCGAGGTAGAGTGATGCTTGCTTTTGAAGATAATGGATCCTCAAAAATTGGAGTCCGGTTTGACAAGCAGATCCCTGATGGT
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 10
-------attttatcctcctgctaattttttgatatctaatcatttagtttatatttttttcttattctggaaaattaagatattattcttctt---ctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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gtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattg-ttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
-attttatcctcctgctaattt--tttgatatctaatcatttagtttatatttttttcttattctggaaaattaagatattattct-tcttctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
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catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgtttt--tgttctgttaaaacagtttctcattttatgttttttattg--cagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttttttcttattctggaaaattaagatattattcttcttctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
ttattcttcttctat CT-rich tract
aaaattaagatattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attttatcctcctgctaattttttgatatctaatcatttagtttatatttttttcttattctggaaaattaagatattattcttcttctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - tcctcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcttc