Sequence
atgc intronic sequence ATGC exonic sequence...cttctgtggttgtcattgttattttttctacatgtatactctgctattgcttctttgttgtcctcaactcctcattagaaataccaatctatattttcagGTTGGTTTTCAAGCTATTGCTGAAGCACTTGGACTGGCTGCTGTTAAGGCAGCAGTTGCCATCACTGCCATAATTGCTGGGGGACGATTG
Basic information
species | Glycine max |
transcript | GLYMA18G46420.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 16
lower sequence: AT1G01790.1 (Arabidopsis thaliana), 3'ss of exon 9
cttctgtggttgtcattgttattttttc-----tacatgtatactctgctattgcttctttgttgtcctcaactcctcattagaaataccaatctatattttcagGTTGGTTTTCAAGCTATTGCTGAAGCACTTGGACTGGCTGCTGTTAAGGCAGCAGTTGCCATCACTGCCATAATTGCTGGGGGACGATTG
|||||| |||| | | | | | | ||||||| | || | | | | || || | | | | ||||||| |||| |||||||| ||||||||||| ||||| || ||||| || || |||||||| || || ||||| ||||||||||| || || |
-----ctggttgaaattgctggtatgccagatatttctatatactcaaggaagtctaggaaatatcagtggtcgcaaaatgctaagtttctactgctcttttcagATTGGATTTCAAGCCATTGCTGAAGCTCTTGGGCTTGCTGCAGTCAAAGCAGCAGTGGCTATTACTGCAATAATTGCTGGTGGCCGTCTA
upper sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 16
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 8
cttctgtggttgtcattgttattttttctacatgtatactctgctattgcttctttgttgtcct-caactcctcattagaaa--taccaatctatattttcagGTTGGTTTTCAAGCTATTGCTGAAGCACTTGGACTGGCTGCTGTTAAGGCAGCAGTTGCCATCACTGCCATAATTGCTGGGGGACGATTG
|| |||| ||| | | || | | | ||| | | | | || | | || | | || | | || | | || | || |||| |||| |||||||| ||||||||||| |||||||| ||||| | || ||||||||||| ||||||| |||||||||||| || || |
ctcatgtg-ttgctaatatttgctgtcttgcatatttctcaaggaa--gcctataaattattttgtaagaggagaatgctaagttgctaactacttttctcagATTGGATTTCAAGCCATTGCTGAAGCTCTTGGACTAGCTGCAATCAAAGCAGCAGTTGCTATCACTGGCATAATTGCTGGTGGCCGTCTC
upper sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 7
-cttctgtg-gttgtcattgttattttttctacatgtatactctgctattgcttct-ttgttgtcctcaactcctcattagaaataccaatctatattttcagGTTGGTTTTCAAGCTATTGCTGAAGCACTTGGACTGGCTGCTGTTAAGGCAGCAGTTGCCATCACTGCCATAATTGCTGGGGGACGATTG
|| || |||| || | ||| | || | | | || ||||| || || | | | || | | | || | || | ||| | |||||| ||||||||||||| ||||||||||| || ||||||||||||||||||||| ||||||||| |||||||||||||||| ||||| |||
ttctccatgcgttgatcatgcttctttgttgtcagttgt-cactactattactgctgcttctattcttatgttgttatcatggcaacaattctgt--tttcagATTGGTTTTCAAGCCATTGCTGAAGCTCTCGGACTGGCTGCTGTTAAGGCATTAGTTGCCATTGCTGCCATAATTGCTGGTGGACGCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgcttctttgttgtcctcaactcctcattagaaataccaatctatattttcagGTTGGTTTTCAAGCTATTGCTGAAGCACTTGGACTGGCTGCTGTTAAGGCAGCAGTTGCCATCACTGCCATAATTGCTGGGGGACGATTG
tattttc CT-rich tract
aatctatattttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttctgtggttgtcattgttattttttctacatgtatactctgctattgcttctttgttgtcctcaactcctcattagaaataccaatctatattttcagGTTGGTTTTCAAGCTATTGCTGAAGCACTTGGACTGGCTGCTGTTAAGGCAGCAGTTGCCATCACTGCCATAATTGCTGGGGGACGATTG
- - -gtggttg
- - - - - - - - - - - - - - - catgtat
- - - - - - - - - - - - - - - - - - - ctctgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcctca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaatac