Sequence
atgc intronic sequence ATGC exonic sequence...attctctgttctctttatgctgttgttaccttgaattctttaactgttaaactactaatatacatgatctaagttcattcatgtggttctctatctgcagATTCGCTGCAAAAGAAGTTGAACAACTTGACAAAAATAAGCAGTGGTCTAGGGCTCTTGATGGTTCTAGTTACCTTCCTGGAATG
Basic information
species | Glycine max |
transcript | GLYMA13G22190.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G22190.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G091151_T01 (Zea mays), 3'ss of exon 2
attctctgttctctttatgctgttgttaccttgaattctttaactgttaaactactaatatacatgatctaagttcattcatgtggttctctatctgcagATTCGCTGCAAAAGAAGTTGAACAACTTGACAAAAATAAGCAGTGGTCTAGGGCTCTTGATGGTTCTAGTTACCTTCCTGGAATG
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-----gtgcttcttcattgcttctaacattac-atttcaatagcacttgatggctttggcaacacaggct--gctaattagtgtactgttctg---gcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAGAGCACTTGATGGCTCCAATTATCTACCTGGAATG
upper sequence: GLYMA13G22190.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G22350.2 (Arabidopsis thaliana), 3'ss of exon 2
----attctctgttctctttatgctgttgttaccttgaattctttaactgttaaactactaatatacatgatctaagttcattcatgtggttctctatctgcagATTCGCTGCAAAAGAAGTTGAACAACTTGACAAAAATAAGCAGTGGTCTAGGGCTCTTGATGGTTCTAGTTACCTTCCTGGAATG
|| || | ||| || | | | || | || || | | | | | | | | | | | | || | || || | ||| || | | | |||| | | |||||||| |||| |||||||||||||||||||||||| || || ||||| ||||||
catgatagcttgaacatattactcttctttcatgttttgtcaatttttctttgatttttcagt-tcctttgtatgaaggcttcggtg---ctatccatttacagGTTTAGTAGAGCACAAGTAAACGAGCTTGACAAGAATAGGCAGTGGTCTAGGGCTCTTGATGGCTCCGACTATCTTCCAGGAATG
upper sequence: GLYMA13G22190.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G22410.1 (Arabidopsis thaliana), 3'ss of exon 1
attctctgt-tctctttatgctgttgttaccttgaattctttaactgttaaactactaatatacatgatctaagttcattcatgtg-gttctctatctgcagATTCGCTGCAAAAGAAGTTGAACAACTTGACAAAAATAAGCAGTGGTCTAGGGCTCTTGATGGTTCTAGTTACCTTCCTGGAATG
| | | | | | || || | | || | || | | | | || | | | | | | | | | | | | | | || || | ||| || | | | |||| | | |||||||| |||| |||||||||||||||||||||||| || || ||||| ||||||
--tatttatattttttcatattactcttctttcatgttttctcaatttttctttgatttttcagttcctttttatgaaggcttcggtgctatccatttacagGTTTAGTAGAGCACAAGTAAACGAGCTTGACAAGAATAGGCAGTGGTCTAGGGCTCTTGATGGCTCCGACTATCTTCCAGGAATG
upper sequence: GLYMA13G22190.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G22285.1 (Arabidopsis thaliana), 3'ss of exon 3
attctctgttctctttatgctgttgttaccttgaattctttaactgttaaactactaatatacatgatctaagttcattcatgtg-gttctctatctgcagATTCGCTGCAAAAGAAGTTGAACAACTTGACAAAAATAAGCAGTGGTCTAGGGCTCTTGATGGTTCTAGTTACCTTCCTGGAATG
| | | || | | || | | | | | || | | || | | | | | | | | | ||| || || | ||| || | | | |||| | | |||||||| |||| |||||||||||||||||||||||| || || ||||| ||||||
-cttgatagcttgaacatattactcttctttcatgtcttgtcaaattttctttgattttacagttcctttttatgaaggcttcggtgttatccatttacagGTTTAGTAGAGCACAAGTAAACGAGCTTGACAAGAATAGGCAGTGGTCTAGGGCTCTTGATGGCTCCGACTATCTTCCAGGAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaaactactaatatacatgatctaagttcattcatgtggttctctatctgcagATTCGCTGCAAAAGAAGTTGAACAACTTGACAAAAATAAGCAGTGGTCTAGGGCTCTTGATGGTTCTAGTTACCTTCCTGGAATG
tactaat putative branch site (score: 1)
ttctctatct putative PPT
tactaatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attctctgttctctttatgctgttgttaccttgaattctttaactgttaaactactaatatacatgatctaagttcattcatgtggttctctatctgcagATTCGCTGCAAAAGAAGTTGAACAACTTGACAAAAATAAGCAGTGGTCTAGGGCTCTTGATGGTTCTAGTTACCTTCCTGGAATG
- - - - - - - - -tgctgtt
- - - - - - - - - - - - - - ccttgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtggtt