Sequence
atgc intronic sequence ATGC exonic sequencegttgaactgttctaaataagttgagttgcaaaaatatcatttttcttttttaatgatatcaattcaaagacagtttgccgaaactgcaaaatctatagaattttgtcagttgtgtaccagtttgcttgacttgcctgatatattattgaacacttgccagGTAGAAGTACCCTCCTGTTTCGTGGGTTTAGTTCTGGAGAATTGTCAACTCCCACTTGAAAATTACGGGCATGTTATTTTGGCTGATCCTTCCCCTATCT
Basic information
species | Glycine max |
transcript | GLYMA18G14860.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G14860.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0525g00020.t01 (Vitis vinifera), 3'ss of exon 4
gttgaactgttctaaataagttgagttgcaaaaatatcatttttcttttttaatgatatcaattcaaa-gacagtttgccgaaactgcaaaatct--atagaattttgtcagttgtgtac-cagtttgcttgacttgcctgatata-----------ttattgaacacttgccagGTAGAAGTACCCTCCTGTTTCGTGGGTTTAGTTCTGGAGAATTGTCAACTCCCACTTGAAAATTACGGGCATGTTATTTTGGCTGATCCTTCCCCTATCT
|||| || ||| ||| | | | | || | || ||| | | | ||| ||| || | | | | | || | || || | | | | | || ||||| || | | ||| | | || || ||| || |||||||| || ||||||||||| || ||||| || |||||||| ||||| || || ||| |||| |||| ||||||||||| || |||||||| || ||||
-gtgaagtgctctct-taaccttcttaatactttccttggttggttacttaaatattcttttgtgaaatgaccattggtgatactttctacattttcatctcatcctctgaatctggcacacagttcaattttttcccatgaaacaaacttattcattttttaaactttttacagGTAGATGTGCCCTCCTGTTTTGTTGGTTTGGTCCTGGAGAACTGTCAGCTTCCCTTTGCAAATCACGGACATGTTATTTTAGCAGATCCTTCACCCATCT
upper sequence: GLYMA18G14860.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0441g00020.t01 (Vitis vinifera), 3'ss of exon 4
-----------gttgaactgttctaaataagttgagttgcaaaa-atatcatttttcttttttaatgatatcaattcaaagacagtttgccgaaactgcaaaatctatagaattttgt---cagttgtgtaccagtttgcttgacttgcctgatatattattgaacacttgccagGTAGAAGTACCCTCCTGTTTCGTGGGTTTAGTTCTGGAGAATTGTCAACTCCCACTTGAAAATTACGGGCATGTTATTTTGGCTGATCCTTCCCCTATCT
| ||| |||| |||| | | | | | | | ||||||| | | | || | | || | ||| ||| |||| | | ||||| | || | | | || || ||| || |||||||| || ||||||||||| || ||||| || |||||||| ||||| || || ||| ||| |||| ||||||||||| || |||||||| || ||||
gtgaagtgctctcttaacc-ttcttaatactctccttggttggttacttaaatattcttttgtgaaatgaccattggtgatactttctgc-attttcatctcatcctctgaatctggcacacagttcaattttttcccatgaaacaaacttattcattttttaaactttttacagGTAGATGTGCCCTCCTGTTTTGTTGGTTTGGTCCTGGAGAACTGTCAGCTTCCCTTTGCGAATCACGGACATGTTATTTTAGCAGATCCTTCACCCATCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagttgtgtaccagtttgcttgacttgcctgatatattattgaacacttgccagGTAGAAGTACCCTCCTGTTTCGTGGGTTTAGTTCTGGAGAATTGTCAACTCCCACTTGAAAATTACGGGCATGTTATTTTGGCTGATCCTTCCCCTATCT
gcctgat putative branch site (score: 4)
tgatatattattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgaactgttctaaataagttgagttgcaaaaatatcatttttcttttttaatgatatcaattcaaagacagtttgccgaaactgcaaaatctatagaattttgtcagttgtgtaccagtttgcttgacttgcctgatatattattgaacacttgccagGTAGAAGTACCCTCCTGTTTCGTGGGTTTAGTTCTGGAGAATTGTCAACTCCCACTTGAAAATTACGGGCATGTTATTTTGGCTGATCCTTCCCCTATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT