Sequence
atgc intronic sequence ATGC exonic sequencegttgtttgttgtttgttagttatctcaacttaacttttatgttgttttttggagtaaatatttcaacttcatgacttgcataaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG
Basic information
species | Glycine max |
transcript | GLYMA18G36660.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G36660.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G018048_T01 (Zea mays), 3'ss of exon 2
gttgtttgttgtttgttagttatctcaacttaacttttatgttgttttttggagtaaatatttcaactt---catgacttgcataaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG
|| | ||| ||| || |||||| || |||| ||| | | | || ||| | ||| || ||||| ||||||||||| || ||||||||||||| |||||||| || |||| ||| || ||||||| | | || ||||||
-----------------------------------gttcttttgggtttgaagttatatatttatttttgagtatgatttgtggtga-tagctaaatatc-ttgaatatttcagGCACTTGTTGTCCTTGTCCATGATATGGGTCAAAACTGGGAACTAGTTAGTGACGCAATCAACAACATCGTGCAGTTCAAG
upper sequence: GLYMA18G36660.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G440943_T01 (Zea mays), 3'ss of exon 15
gttgtttgttgtttgttagttatctcaacttaacttttatgttgttttttggagtaaatatttcaacttcatgacttgcataaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG
||| | | || | || ||| || ||| | || || | ||| || || ||| | || | ||||||||||||||||| || |||||||||||| |||||||| | |||| ||||||| | ||||| | || ||||| |||
----------------------------gttactgtctttgcaatattgtgggtcttatttttta-tttgttggca---ataccctaattttctttcatac-------cagGCTCTTGTTGTCCTTGTCCATGATATGGGTGAAAACTGGGAATTGGTTAGTGATGCCCTTAACAGCATCATCCAATTGAAG
upper sequence: GLYMA18G36660.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G475362_T01 (Zea mays), 3'ss of exon 10
gttgtttgttgtttgttagttatctcaacttaacttttatgttgttttttggagtaaatatttcaacttcatgacttgca-taaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG
||| | | || | || ||| || ||| | || | ||| || ||| || || | | | ||||||||||||||||| || |||||||||||| |||||||| | |||| |||||| | ||||| | || ||||| |||
----------------------------gttactgtctttgcaatattgtgggtcttattttttat-----tggttggcaatacactaatttcctttcacac-------cagGCTCTTGTTGTCCTTGTCCATGATATGGGTGAAAACTGGGAATTGGTTAGCGATGCCCTTAACAGCATCATCCAATTGAAG
upper sequence: GLYMA18G36660.1 (Glycine max), 3'ss of exon 15
lower sequence: AT3G24870.1 (Arabidopsis thaliana), 3'ss of exon 15
gttgtttgttgtttgttagttatctcaacttaacttttatgttgttttttggagtaaatatttcaacttcatgacttgcataaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG
||| ||| || || |||| ||||| | |||| | |||| ||| |||| | | || || | | || ||| | | |||| |||||||||||||||||||||||||| || ||||||||||| ||| |||||| || ||||| ||| | || | |||
-------gttttttattcgtcatctttcattaacatcgatgta--ctgttgg-----------ttgctttatgagt------atctaatt-tattttttcctaccatatagGCGCTTGTTGTCCTGGTGCATGATATGGGGCCTAACTGGGAGCTCATTAGTGATGCAATGAACAGCACTCTTAAAATTAAG
upper sequence: GLYMA18G36660.1 (Glycine max), 3'ss of exon 15
lower sequence: AT3G24880.1 (Arabidopsis thaliana), 3'ss of exon 14
gttgtttgttgtttgttagttatctcaacttaacttttatgttgttttttggagtaaatatttcaacttcatgacttgcataaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG
||| ||| || || |||| ||||| | |||| | |||| ||| |||| | | || || | | || | | | | |||| |||||||||||||||||||||||||| || ||||||||||| ||| |||||| || ||||| ||| | || | |||
-------gttttttattcgtcatctttcattaacatcgatgta--ctgttgg-----------ttgctttatgagt------atctaatt-tatctttttctaccatatagGCGCTTGTTGTCCTGGTGCATGATATGGGCCCTAACTGGGAGCTCATTAGTGATGCAATGAACAGCACTCTTAAAATTAAG
upper sequence: GLYMA18G36660.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 15
gttgtttgttgtttgttagttatctcaacttaacttttatgttgttttttggagtaaatatttcaacttcatgacttgcataaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG
||| || || || || || ||| | || ||||| || || || | || | | | || | | | || | | | |||| | || |||| ||||| ||||| || |||||||||||| | || ||||||||||| | |||||| |||||||| ||| | |||||||||
gttattc-ttcctttttctttttctgatgttgtctttt---ttattcttagtgatagaaagtaaaagtgctgaagttttactag---------tgttat----tattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatttcaacttcatgacttgcataaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG
ttatctattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtttgttgtttgttagttatctcaacttaacttttatgttgttttttggagtaaatatttcaacttcatgacttgcataaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT