Sequence
atgc intronic sequence ATGC exonic sequence...aaagagcagttagtttaatctagaacatgcatatgcttgttgccaagcagtatctgatgattgcaaaggctaatgaagctgttgatttctgtggtttcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
Basic information
species | Glycine max |
transcript | GLYMA13G28300.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os07g45160.1 (Oryza sativa), 3'ss of exon 11
aaagagcagttagtttaatc---tagaacatgcatatgcttgttgccaagcagtatctgatgattgcaaaggctaa-----tgaagctgttgatttctgtggtttcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
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-----gtagttacatttatttcttggtgtcattacatgtttatttattt-cgacaccttaagttcccaaaaaatttcatcctcaagccaccttttcttttctgcccagATAAGGCTCCACATTATAGCAATGCATGAATTATGCGAGTACAACAAGGGAGAAGGGTTTTCAGAAGGTTTTGATGCACATCTTAACATCGAGCAGATGA
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G429213_T01 (Zea mays), 3'ss of exon 5
aaagagcagttagtttaatctag-aacatgcatatgcttgttgccaagcagtatctgatgattgcaaaggctaatgaagctgttgatttctgtggtttcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
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attttgtcatgtgtttatttcatcagccactatgaatttattctgtgggcacccttatttcctggaatgtttcatcttgaagctgtcttttgttgag-cagATAAGGCTCCACATAATTGCGATGCATGAATTATGTGAATACAACAAAGGAGAAGGTTTTTCCGAGGGTTTTGATGCACACCTCAACATTGAGCAGATGA
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G429231_T02 (Zea mays), 3'ss of exon 5
aaagagcagttagtttaatctag-aacatgcatatgcttgttgccaagcagtatctgatgattgcaaaggctaatgaagctgttgatttctgtggtttcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
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gttttgtcatgtgtttatttcatcagccactatgaatttattctgtgggcacccttatttcctggaatgtttcatcttgaagctgtcttttgttgag-cagATAAGGCTCCACATAATTGCGATGCATGAATTATGTGAATACAACAAAGGAGAAGGTTTTTCCGAGGGTTTTGATGCACACCTCAACATTGAGCAGATGA
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G429231_T01 (Zea mays), 3'ss of exon 14
aaagagcagttagtttaatctag-aacatgcatatgcttgttgccaagcagtatctgatgattgcaaaggctaatgaagctgttgatttctgtggtttcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
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gttttgtcatgtgtttatttcatcagccactatgaatttattctgtgggcacccttatttcctggaatgtttcatcttgaagctgtcttttgttgag-cagATAAGGCTCCACATAATTGCGATGCATGAATTATGTGAATACAACAAAGGAGAAGGTTTTCCCGAGGGTTTTGATGCACACCTCAACATTGAGCAGATGA
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G06290.1 (Arabidopsis thaliana), 3'ss of exon 12
--aaagagcagttagtttaatctagaacatgcatatgcttgttgccaagcagtatctgatgattgcaaaggctaatgaagctgttgatttctgtggtttcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
| | | || || | | || | | || || || ||| | | | | | || ||||||| || || ||||| | | | || ||||||||||||||||| |||||||||| ||||||||||| || ||||| ||||| |||||||| || || |||||||| |||||||
gtttgtgttttctgatcttatataaatctcat-taaacaggatgataaacaatattcttttttaaatgcgtgtgttcttactattgattttcctg-ttacagATTAGACTTCACATCATTGCAATGCATGAGCTATGTGAATATACTAAAGGAGAGGGCTTTTCGGAGGGGTTTGATGCACACCTGAATATTGAGCAGATGA
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 7
aaagagcagttagtttaatctagaacatgcatatgct-tgttgccaagcagtatctgatgattgcaaaggctaatgaagctgt-tgatttctgtggtt-tcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
| | | | | | | | | || | |||| | ||| || |||| || ||| |||| || | | |||||||||||| | ||||||| | | ||||| || || ||||||||||||||||||||||| |||||||| |||||||| ||||| |||||||| || ||||||||||| |||||||
---ctactgctggaggatacgcgttagtctaagtgatgtgttccaaagtgtcatatgattcttctcaagactaagagagttttctgatttctgtgggtgccagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcagtatctgatgattgcaaaggctaatgaagctgttgatttctgtggtttcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
tttctgt CT-rich tract
taatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagagcagttagtttaatctagaacatgcatatgcttgttgccaagcagtatctgatgattgcaaaggctaatgaagctgttgatttctgtggtttcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - acatgca
- - - - - - - - - - - - - - - - - - -tgttgcc
- - - - - - - - - - - - - - - - - - - - - - - - -gtatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctgttg