Sequence
atgc intronic sequence ATGC exonic sequence...ttggcaacaagatacctgttcgtttgtgtctggttttatggtttcttttatttcattgttatcatctttctgacatgaatcagaatttgattctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAAATAAATCAGTTGCCAAAGTATATGTAAGGAACA
Basic information
species | Glycine max |
transcript | GLYMA12G06580.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G06580.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 4
-----ttggcaacaagatacctgttcgtttgtgtctggttttatggtttcttttatttcattgttatcatctttctgacatgaatcagaatttgattctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAAATAAATCAGTTGCCAAAGTATATGTAAGGAACA
||| || | | |||| | | | || |||| ||| | | ||| | | |||| | | | | | || ||||||||||| || || |||||||||||||||||| |||||||||| || || ||||| || ||||| || |||||||||||||| || || ||||||||| |
atatgttgatgacttg-tgcctgc-cagtcatttcattttttccaatttgcctgtctacatatgatttagctttttaatgttggtt---tctgaatatgttgcagATTAGTTTCCAAGAGTTTAAAAACAAGCTTCTGGAACCAGGTTTGGTGGACCACATAGTTGTTTCTAATAAATCAGTTGCAAAGGTGTATGTAAGGGGCT
upper sequence: GLYMA12G06580.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S456_6V6.1 (Physcomitrella patens), 3'ss of exon 4
ttggcaacaagatacctgttcgtttgtgtctggttttatggtttcttttatttcattgttatcatctt--tctgacatgaatcagaatttgattctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAAATAAATCAGTTGCCAAAGTATATGTAAGGAACA
| || | || || | | | | ||| | | | ||| | ||| | | || | | | || |||||||||||||||||||||||| ||||| | |||||||||| |||| ||| |||| ||| | || ||| | || ||||| || || |
-cagtaagcgtgtttctatttttata-gcataaatttctttccttctgcgtttgagagttgtgacctaggctaagtttacgttggtggcaattttgaagcagATTAGCTTTCAGGAGTTTAAGAACAAATTGCTGGAACCAGGCCTAGTTGACAGAATTGAGGTCGCCAACAAAAGCCTGGCTAAAGTCTACGTGTATACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttatttcattgttatcatctttctgacatgaatcagaatttgattctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAAATAAATCAGTTGCCAAAGTATATGTAAGGAACA
ttctttgc CT-rich tract
aatttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggcaacaagatacctgttcgtttgtgtctggttttatggtttcttttatttcattgttatcatctttctgacatgaatcagaatttgattctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAAATAAATCAGTTGCCAAAGTATATGTAAGGAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - -atacctg
- - - - - - - - - - - - -gtgtctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgac