Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgagacatcagtatagaaacattgaatacatattttggaaagaagttttgtttcctcaagaactgtactatgctttttgcagGTTGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACCATAATATCAAATGCTACCAGATGGGATACATTTG
Basic information
species | Glycine max |
transcript | GLYMA10G10990.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 6
gtaagtgagacatcagtatagaa-acattgaatacatattttggaaagaagttttgtttcctcaagaactgtactatgcttt-ttgcagGTTGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACCATAATATCAAATGCTACCAGATGGGATACATTTG
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-----------gtaagttcatcttacttagactaaatatct-----ggagcttttatcgacttgttagctgagcatttcattactatagGTTGGAGTCAGGTTATCAAATGGGAAGGAGTTCTTTGCTAAAACAGTGATATCGAATGCTACCAGATGGGATACATTTG
upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G106531_T01 (Zea mays), 3'ss of exon 6
gtaagtgagacatcagtatagaaacattgaatacatattttggaaagaagttttgtttcctcaa-gaactgtactatgctttttgcagGTTGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACCATAATATCAAATGCTACCAGATGGGATACATTTG
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gtgagttacctttagtcctttacagacttaa-atatgtgaacttattgggttttgtatcttagctgagcacttctgtactc----cagGTTGGGGTGAGGTTATCAAATGGGAAGGAGTTCTTTGCTAAAACAGTGATATCAAATGCCACCAGATGGGACACGTTTG
upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 6
gtaagtgagacatcagtatagaaacattgaatacatattttggaaagaagttttgtttcctcaagaactgtactatgctttttgcagGTTGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACCATAATATCAAATGCTACCAGATGGGATACATTTG
||||| ||| || || || ||||| | | | ||||||| || | || || ||| | | | |||||||| |||||| | |||||||| | ||||||||||| ||||| | ||||||||||| || |||||||| |||||||
----gtgagttatct-tactgac---ttaaatacctggacttattgg--gttttgtatctt--agctgtgaact-tctgtactccagGTTGGGGTGAGGTTGTCAAATGGGAAGGAGTTCTTTGCTAAAACGGTGATATCAAATGCCACTAGATGGGACACATTTG
upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------------gtaagtgagacatcagtatagaaacattgaatacatattttggaaagaagttttgtttcctcaagaactgtactatgctttttgcagGTTGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACCATAATATCAAATGCTACCAGATGGGATACATTTG
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gtaagtttctgtatgagtcttgttgaagttttatttttttcattaaccctttgaaattcctttttggttatgaaaatcgttttattt---tctggaccttaatttt--cagGTTGGTGTAAGGCTAGCAGATGGAAGAGAATTTTTCGCTAAGACGATAATTTCAAATGCTACAAGATGGGATACGTTTG
upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtgagacatcagt-------ataga-aacattgaa-tacatattttggaaagaagttttgt---ttcctcaagaactgtactatgcttt---ttgcagGTTGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACCATAATATCAAATGCTACCAGATGGGATACATTTG
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gtgagtttgaccttagtcttgtggatagatgatgttaaaattcctatacttggtacttattttatagatgaagtgagatttttattttgctttgcattgtagGTGGGAGTGAAGCTTTCAGATGGAAGGGAGTTCTTTGCCAAAACCATAGTATCTAATGCTACTAGATGGGATACATTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatattttggaaagaagttttgtttcctcaagaactgtactatgctttttgcagGTTGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACCATAATATCAAATGCTACCAGATGGGATACATTTG
tgcttttt CT-rich tract
ttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgagacatcagtatagaaacattgaatacatattttggaaagaagttttgtttcctcaagaactgtactatgctttttgcagGTTGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACCATAATATCAAATGCTACCAGATGGGATACATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG