Sequence
atgc intronic sequence ATGC exonic sequence...aataataaatattttgacctgcatgtttcccattttatgcatttcagatgattattttccaaatatatagttatattttcttttcttgcccgtgttctagAATGGGAAGCAAATGGTTCAAGAAGGAGCATTGACAGCCTTAGCATCTGTTGCTGATTCTTCACAG
Basic information
species | Glycine max |
transcript | GLYMA16G04400.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G04400.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g38760.1 (Oryza sativa), 3'ss of exon 3
aataataaatattttgacctgcatgtttcccattttatgcatttcagatgattattttccaaatatatagt---tatattttcttttcttgcccgtgttctagAATGGGAAGCAAATGGTTCAAGAAGGAGCATTGACAGCCTTAGCATCTGTTGCTGATTCTTCACAG
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-gtatccacctccctcaccagttaaatat--attttattgtcttttagtgttatttttttgaactagtagaacatgtgctaatatattgtacttatgctttagAACGGCAAGCAAATGGTGCAAGAGGGAGCATTGACAGCTTTAGCATCAGTAGCTGATTCATCGCAG
upper sequence: GLYMA16G04400.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G887631_T01 (Zea mays), 3'ss of exon 3
aataataaatattttgacctgcat-gtttcccatttta---tgcatttcagatgattattttccaaatatatagttatattttcttttcttgcccgtgttctagAATGGGAAGCAAATGGTTCAAGAAGGAGCATTGACAGCCTTAGCATCTGTTGCTGATTCTTCACAG
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------gtatgcatttacttgtgttgaattaggtatcagcttgctttaaaaatatttgttatcatggttagtaaacatgctaactgctcttgttcatattctagAATGGAAAGCAAATGGTGCAGGAGGGAGCATTGACAGCTTTAGCGTCAGTAGCAGATTCATCACAG
upper sequence: GLYMA16G04400.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------------------------------------------------------aataataaatattttgacctgcatgtttcccattttatgcattt--cagatgattattttccaaatatatagttatattttcttttcttgcccgtgttctagAATGGGAAGCAAATGGTTCAAGAAGGAGCATTGACAGCCTTAGCATCTGTTGCTGATTCTTCACAG
|| |||| | | | | || ||| | ||||| ||||| | ||| | |||| || | | | | | || |||||||||||||||||||||| || || || |||||||| |||||||| ||||||||||| ||||||
gtatatcaaagctcctgttatcaaccttgtttatgttcagcagatgcattcacatgcaccatattttatacaactatataatatgacatgcttattaaagacgtgaatatatgcaattttgtctttcttcatttgcttgatgaatgggttctgcttgagcttgtatacattatgatat-gtgtgaaatccagAATGGGAAGCAAATGGTTCAGGAGGGGGCTTTGACAGCTTTAGCATCAGTTGCTGATTCATCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatgattattttccaaatatatagttatattttcttttcttgcccgtgttctagAATGGGAAGCAAATGGTTCAAGAAGGAGCATTGACAGCCTTAGCATCTGTTGCTGATTCTTCACAG
ttttcttttcttgccc CT-rich tract
attattttccaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aataataaatattttgacctgcatgtttcccattttatgcatttcagatgattattttccaaatatatagttatattttcttttcttgcccgtgttctagAATGGGAAGCAAATGGTTCAAGAAGGAGCATTGACAGCCTTAGCATCTGTTGCTGATTCTTCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - gcatttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaaata