Sequence
atgc intronic sequence ATGC exonic sequence...caaaattgttcaatctaaaatacttctattattgtttcttgagtgtttttgtgttacatgaatatgctcatcatttaggttagtgccttttgtctcgcagACTACCTATGAAAATTTCCGGTACAGAGCTGAAGGCAGGATCAATGTTTTTAACCGGGGTTGTTTAAATAATTTTCTGGAAGTGTTTTGCACAAAAGTAA
Basic information
species | Glycine max |
transcript | GLYMA20G30860.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G30860.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g64810.2 (Oryza sativa), 3'ss of exon 4
-----------caaaattgttcaatctaaaatacttctattattgtttcttgagtgtttttgtgttacatgaatatgctcatcatttaggttagtgccttttgtctcgcagACTACCTATGAAAATTTCCGGTACAGAGCTGAAGGCAGGATCAATGTTTTTAACCGGGGTTGTTTAAATAATTTTCTGGAAGTGTTTTGCACAAAAGTAA
|| | | | | || | ||| | || | | | | ||||| || ||||| || | | ||| ||| | | ||||| || ||||||||||||||||||||||| || ||||| |||| | | | || || ||| | ||||| ||||| ||||| || | || || ||
attccaagcatttgaaacaaccccttttagatgcctcttctcctgaa-cataaatatttttacattgcatga---------tctctgatacggatgc-tttggcttttcagACCACATATGAAAATTTCCGGTACAGAGCAGATGGCAGACCAAATGCCTATGATCGAGGATGTATGAATAACTTTCTAGAAGTCTTCTATACTAAGGTTC
upper sequence: GLYMA20G30860.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0072g00240.t01 (Vitis vinifera), 3'ss of exon 4
caaaattgttcaatctaaaatacttctattattgtttcttgagtgtttttgtgtt---acatgaatatgctcatcatttaggttagtgccttttgtctcgcagACTACCTATGAAAATTTCCGGTACAGAGCTGAAGGCAGGATCAATGTTTTTAACCGGGGTTGTTTAAATAATTTTCTGGAAGTGTTTTGCACAAAAGTAA
|| ||| | || | |||||| | | | | | | | || | | | | | || |||| || |||| ||| | | | | ||||||||||| || |||||||||||||||||||| |||||||||||| | | |||| || ||| | ||||||||||| ||||| || ||| |||| |||
taatatttattgatgtt---ctcttctagtgaaatgtttgggttttgttaatcctttgattttttaactcttatcagttgagttaatgctatatattttacagACTACCTACGAGAATTTCCGGTACAGAGCTGACAACAGGATCAATGTGTATGACCGTGGGTGTGTGAATAATTTTCTTGAAGTATTCTGCTCAAAGATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgtgttacatgaatatgctcatcatttaggttagtgccttttgtctcgcagACTACCTATGAAAATTTCCGGTACAGAGCTGAAGGCAGGATCAATGTTTTTAACCGGGGTTGTTTAAATAATTTTCTGGAAGTGTTTTGCACAAAAGTAA
ccttttgtctc CT-rich tract
atgaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaaattgttcaatctaaaatacttctattattgtttcttgagtgtttttgtgttacatgaatatgctcatcatttaggttagtgccttttgtctcgcagACTACCTATGAAAATTTCCGGTACAGAGCTGAAGGCAGGATCAATGTTTTTAACCGGGGTTGTTTAAATAATTTTCTGGAAGTGTTTTGCACAAAAGTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - tacatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttagtgc