Sequence
atgc intronic sequence ATGC exonic sequencegttagtaaattaatttgatcagaagtacataaataattactgttaccatgcatatgttttcacaaataaactcgaagagtcttttgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
Basic information
species | Glycine max |
transcript | GLYMA08G28890.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os09g33600.1 (Oryza sativa), 3'ss of exon 8
gttagtaaattaatttgatcagaagtacataaataattactgttaccatgcatatgttttcacaaataaactcgaagagtcttttgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
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gtacatgcactgtttc--cctgtataactgttctgatttctgtagttgtatgtac-----cgtggctttgtcttatctatttaattttcagGTGACTGCACTTTCAAATATCGAGGCCAAGAAAAGATTTGAATTTTTAGAGGCTGTCAGTGGGACAATGGATGCACATCTGCGCTATTTCAAACAA
upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 3'ss of exon 8
----gttagtaaattaatttgatcagaagtacataaataattactgt-taccat---gcatatgttttcacaaataaactcgaagagtcttttgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
|| | | || || || || | ||||||| | || | | ||| | ||| | | | || || | |||| ||| | | || || |||| |||||||||||||||||||||||||| || || ||| || |||||| | |||||||| || || |||||
gtatgtgaaacagttgatcagactttgttcttgtattttcttactgtgtgccttttttcttatcatatcatcatttgccatacctgcactattttttagGTCACTTCAATTTCCCATATTGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTTCAACTATGGATTCTCATCTTCGATATTTTAAACAA
upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G872204_T01 (Zea mays), 3'ss of exon 5
----------gttagtaaattaatttgatcagaagtacataaataattactgttaccatgcatatgttttcacaaataaactcgaagagtcttttgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
| || ||| |||| | ||| | | || ||| ||||| ||||| || || | || || ||||| ||| | | || |||| || |||||||||||||||||||||||||| || || |||| ||| |||||| ||||||||||||| || |||||
gtatgatttgcatcgtcccttactttgcttcttagtttctgagcttatatgcttatcatgccattgtttgt-catatccatgttaa-------tttctcagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G059225_T02 (Zea mays), 3'ss of exon 8
----gttagtaaattaatttgatcagaagtacataaataattactgttaccatgcatatgttttcacaaataaactcgaagagtcttttgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
| ||| || | | | ||| | | ||| | || | ||| ||| || || | | ||||| ||||| | |||||| | || || ||||| || |||||||||||||| || || |||||||| |||||||| ||||||||||| ||||||||
gtacataccctgtttagttgtcacttcacttcatgattccttatttacacagttggaatgccttcgt-------cttatctgtatttatattcagGTGACTGCACTTTCAAATATCGAGGCTAAGAAAAGGTTTGAATTTTTGGAGGCTGTTAGTGGGACAATGGATGCTCATCTTCGTTATTTCAAACAA
upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 8
lower sequence: AT5G13300.1 (Arabidopsis thaliana), 3'ss of exon 8
gttagtaaat-taatttgatcagaagtacataaataattactgttaccatgcatatgt----tttcacaaataaactcgaagagtcttt------tgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
|| | | | | ||||||| ||| |||| | || | | |||| || || || ||| | | || | || ||||| ||||| | |||||||||||||| ||||| || |||||||||||||||||||||||||| || ||||||||||||||||| ||||||||||||
gtaattttctatcgtttgatcttgagtgttcaaatctacatacttgctgtccatacgtagtattgttgaagtaatcatttggtttccctaatttatgctcagGTGACTGCTCTATCAAATGTTGAAGCTAAGAAAAGGTTTGAATTTTTGGAAGCAGTCAGTGGAACAATGGATGCACATCTTCGGTACTTCAAACAG
upper sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 8
------------------------------------gttagtaaattaatttgatcagaagtacataaataattactgttaccatgcatatgttttcacaaata----aactcgaagagtcttttgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
|| || || | || |||| | ||| | | || | ||| | || || | | |||| | || | || ||||||||| ||| | | || |||||||||||||| || || || ||||| ||||||||||| |||||||| |||||||| || ||||| |||||||| |||
gtatgtacgattcttgcaattaatgttctatgcatgattgtcaacttgaattt-ccagatctggatatggatattatggtgccaagttaataacatctgagcttttataacttg--gaatattctgtccagGTAACTACTCTTTCTAATGTTGAAGCAAAAAAAAGGTTCGAATTCTTGGAAGCAGTTAGTGGGACAATGGATGCTCACCTTCGCTACTTCAAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactgttaccatgcatatgttttcacaaataaactcgaagagtcttttgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
tcttttgtcc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaaattaatttgatcagaagtacataaataattactgttaccatgcatatgttttcacaaataaactcgaagagtcttttgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA