Sequence
atgc intronic sequence ATGC exonic sequencegtacttacactaatttagtccataagttatattgaggaaaaagcatgcctttgagaatttgaaattttgttttcttcaagaagagtcaattttggggactaatgtctctgacaatgattttcagGGTTGAGGCTGAGTCATTGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAA
Basic information
species | Glycine max |
transcript | GLYMA19G35370.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g18820.1 (Oryza sativa), 3'ss of exon 3
gtacttacactaatttagtccataagttatattgaggaaaaagcatgcctttgagaatttgaaattttgttttcttcaagaagagtcaattttggggactaatgtctctgacaatgattttcagGGTTGAGGCTGAGTCATTGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAA
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-----------actattcttcattgtctattttaactgttgagt-----tacatagttttgtactctcactcttatacctaa----cttttccctggaatgaaaccttttctg----tatacagGGCAGAATCACAGTCCCTGCATCACTGGTCTGCCAAATATTGTCCTCTTTTGCCACCCCCCAGGTCTACTATCGCAGCTGCATTCAGCCCAGATGGGAAA
upper sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 2
lower sequence: AT5G43930.4 (Arabidopsis thaliana), 3'ss of exon 2
gtacttacactaatttagtccataagttatattgaggaaaaagcatgcctttgagaatttgaaattttgttttcttcaagaagagtcaattttggggactaatgtctctgacaatgattttc--agGGTTGAGGCTGAGTCATTGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAA
| | | || ||| | | ||| || | | || ||| | | ||| || || ||| ||||||||||| |||||||||| |||||| ||||| || ||||||||| | | ||||||||||||| |||||||| || || ||||| | ||||| | |
------------------------------------------gtacactttatgtttcttg----tctctttatttgcataggaccttgttt--aagctcattgtaattggtgattctttatgaagGGTTGAGGCAGAGTCATTGCAGCATTTATCTGCAAAATATTGTCCTCTTGGAGCTCCTCCAAGGTCAACTATTGCTGCGGCTTTTAGTACTGATGGAAGA
upper sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 2
lower sequence: AT1G04140.2 (Arabidopsis thaliana), 3'ss of exon 2
gtacttacactaatttagtccataagttatattgaggaaaaagcatgcctttgagaatttgaaattttgttttcttcaagaagagtcaattttggggactaatgtctctgacaatgattttcagGGTTGAGGCTGAGTCATTGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAA
|| ||| || | | | || | || | |||| || | | || | ||| | | ||| | ||| || || | | ||||||||||| |||||||||| |||||| |||||||| || |||||| | || |||||||||||||| || ||||||||||| ||||| ||||||| | |
------gtacc--tttcgttcgtcacttcttc----------gcttctctttttga--tgtgatccctgcctcctttcgggcatctgaat---gtaaactgcattccct-------acatgtagGGTTGAGGCAGAGTCATTGCAGCATTTATCTGCTAAATACTGTCCTCTTGTACCTCCTCCAAGGTCAACGATTGCAGCAGCTTTTAGTTCAGATGGAAGA
upper sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 2
gtacttacactaatttagtccataagttatattgaggaaaaagcatgcctttgagaatttgaaattttgttttcttcaagaagagtcaattttggggactaatgtctctgacaatgattttcagGGTTGAGGCTGAGTCATTGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAA
| || || || | | | | | | | ||| || ||||||||| | ||| | | || || || ||||| ||||| || ||||||| |||||| || || | |||||||||| || |||||||||| ||||||||||||||||||||||| || |||||||| |||
---------------tcgtacaaggtttttgcttctgt-------tttcatacaagttttttgcttctgttttctttctttttatctttctttctttcttttttgttccttttctg--ttctagGGTAGAGGCAGATTCATTGCAGCATTTATCAGCCAGGTATTGTCCTCTGATGCCTCCTCCGAGGTCTACTATTGCAGCAGCATTCAGTCCAGATGGAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcttcaagaagagtcaattttggggactaatgtctctgacaatgattttcagGGTTGAGGCTGAGTCATTGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAA
ttttc CT-rich tract
aatgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttacactaatttagtccataagttatattgaggaaaaagcatgcctttgagaatttgaaattttgttttcttcaagaagagtcaattttggggactaatgtctctgacaatgattttcagGGTTGAGGCTGAGTCATTGCGGCATTTGTCTGCTAAGTATTGTCCTTTGGTGCCTCCTCCAAGGTCTACTATTGCAGCAGCATTTAGCCCAGATGGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG