Sequence
atgc intronic sequence ATGC exonic sequencegttagtaaattcatttgatcagaagcacaaataattattgttaccatgacatatgttttcacaaataaactcgaagagtctttggtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
Basic information
species | Glycine max |
transcript | GLYMA18G51810.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os09g33600.1 (Oryza sativa), 3'ss of exon 8
gttagtaaattcatttgatcagaagcacaaataattattgttaccat-gacatatgttttcacaaataaactcgaagagtctttggtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
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----gtacatgcact-gtttccctgtataactg-ttctgatttctgtagttgtatgtac-cgtggctttgtcttatctatttaattttcagGTGACTGCACTTTCAAATATCGAGGCCAAGAAAAGATTTGAATTTTTAGAGGCTGTCAGTGGGACAATGGATGCACATCTGCGCTATTTCAAACAA
upper sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 3'ss of exon 8
gttagtaaattcatttgatcagaa---gcacaaataattattgttaccatgacatatgttttcacaaataa--actcgaagagtctttggt-----ccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
|| || || || ||||||||| | | || || | || | | | | || || || | | | | || | |||| ||| | | || || |||| |||||||||||||||||||||||||| || || ||| || |||||| | |||||||| || || |||||
gtatgtgaaa-cagttgatcagactttgttcttgtattttcttactgtgtgccttttttcttatcatatcatcatttgccatacctgcactattttttagGTCACTTCAATTTCCCATATTGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTTCAACTATGGATTCTCATCTTCGATATTTTAAACAA
upper sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G872204_T01 (Zea mays), 3'ss of exon 5
--------------gttagtaaattcatttgatcagaagcacaaataattattgttaccatgacatatgttttcacaaataaactcgaagagtctttggtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
|| | | || || | || | | | || || ||| |||| ||| || ||| | | | | | | | ||||| ||| | | || |||| || |||||||||||||||||||||||||| || || |||| ||| |||||| ||||||||||||| || |||||
gtatgatttgcatcgtcccttactttgcttc-ttagtttctgagcttat-atgcttatcatgccattgtttgtcatatccatgtt-----aatttct----cagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
upper sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G059225_T02 (Zea mays), 3'ss of exon 8
gttagtaaattcatttgatcagaagcacaaataattattgttaccatgacatatgttttcacaaataaactcgaagagtctttg-gtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
|| | ||| | | || | || ||| | | ||| | ||| | | | || ||| | ||||| ||||| | |||||| | || || ||||| || |||||||||||||| || || |||||||| |||||||| ||||||||||| ||||||||
-gtacataccctgtttagttgtcacttcacttcatgattccttattt-acaca-gttggaatgccttcgtcttatctgtatttatattcagGTGACTGCACTTTCAAATATCGAGGCTAAGAAAAGGTTTGAATTTTTGGAGGCTGTTAGTGGGACAATGGATGCTCATCTTCGTTATTTCAAACAA
upper sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G13300.1 (Arabidopsis thaliana), 3'ss of exon 8
gttagtaaat-tcatttgatcagaagca--caaata---attattgttaccatgacatatgttttcacaaataaactcgaagagtctttggtc------cagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
|| | | | || ||||||| || ||||| || ||| | | || || || || ||| | | || | | ||||| ||||| | |||||||||||||| ||||| || |||||||||||||||||||||||||| || ||||||||||||||||| ||||||||||||
gtaattttctatcgtttgatcttgagtgttcaaatctacatacttgctgtccatacgtagtattgttgaagtaatcatttggtttccctaatttatgctcagGTGACTGCTCTATCAAATGTTGAAGCTAAGAAAAGGTTTGAATTTTTGGAAGCAGTCAGTGGAACAATGGATGCACATCTTCGGTACTTCAAACAG
upper sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 8
-----------------------------------gttagtaaattcatttgatcagaagcacaaataattattgt--taccatgaca-tatgttttcacaaataaactcgaagagtctttggtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
| | || || | | |||| | || |||| | | ||| | | || | | | | | | || | || |||||||| ||| | | || |||||||||||||| || || || ||||| ||||||||||| |||||||| |||||||| || ||||| |||||||| |||
gtatgtacgattcttgcaattaatgttctatgcatgattgtcaacttgaatttccagatctggatatggatattatggtgccaagttaataacatctgagcttttataacttggaatattctgtccagGTAACTACTCTTTCTAATGTTGAAGCAAAAAAAAGGTTCGAATTCTTGGAAGCAGTTAGTGGGACAATGGATGCTCACCTTCGCTACTTCAAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgttaccatgacatatgttttcacaaataaactcgaagagtctttggtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
tcttt CT-rich tract
ttttcacaaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaaattcatttgatcagaagcacaaataattattgttaccatgacatatgttttcacaaataaactcgaagagtctttggtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA