Sequence
atgc intronic sequence ATGC exonic sequence...ctttgagtatggtttctgttgcatattctataatgcagatatctgtcttcatttaaattttttaaatcagtgtttcatgccaacaactgctttatttcagACGAAAAAATACTTCAAGGAAATTGGTGTTCATGCTGACGTTAAATATATCGATCCAACGTACATGATCCGTGCATGTCGAGCAAATGCTTCTGATGGAA
Basic information
species | Glycine max |
transcript | GLYMA01G03040.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G03040.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv00s0199g00240.t01 (Vitis vinifera), 3'ss of exon 10
ctttgagtatggtttctgttgcatattc--tataatgcagatatctgtcttcatttaaattttttaaatcagtgtttcatgccaacaactgctttatttcagACGAAAAAATACTTCAAGGAAATTGGTGTTCATGCTGACGTTAAATATATCGATCCAACGTACATGATCCGTGCATGTCGAGCAAATGCTTCTGATGGAA
| || | ||| | || | | | || | | ||| || ||| | || |||| | | || ||| | | | ||||| || ||||| || || | || ||| || ||||| || || ||||| ||||||||||||||||| |||||||| || |||||||| || || ||||
-taaaagcactttttagaatcactaccaaacacactcttaatgtttttctacaag-aaactattgaaatgatactgatatttattcaatcattatgtaccagACAAAGAAATATTTTAAAGCAACTGGCAATCCAGCTGATGTCAAGTATATAGATCCAACGTACATGATTCGTGCATGCCGTGCAAATGCATCAGACGGAA
upper sequence: GLYMA01G03040.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 11
ctttgagtatggtttctgttgcatattc--tataatgcagatatctgtcttcatttaaattttttaaatcagtgtttcatgccaacaactgctttatttcagACGAAAAAATACTTCAAGGAAATTGGTGTTCATGCTGACGTTAAATATATCGATCCAACGTACATGATCCGTGCATGTCGAGCAAATGCTTCTGATGGAA
| | | ||| | || | | | || | | ||| || ||| | || |||| | | || ||| | | | ||||| || ||||| || || | || ||| || ||||| || || ||||| ||||||||||||||||| |||||||| || |||||||| || |||||||
-taaaaacactttttagaatcactaccaaacacactcttaatgtttttctacaag-aaactattgaaatgatactgatatttattcaatcattatgtaccagACAAAGAAATATTTTAAAGCAACTGGCAATCCAGCTGATGTCAAGTATATAGATCCAACGTACATGATTCGTGCATGCCGTGCAAATGCATCAGATGGAA
upper sequence: GLYMA01G03040.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S94_106V6.1 (Physcomitrella patens), 3'ss of exon 11
ctttgagtatggtttctgttgcatattctata-atgcagatatctgtcttcatttaaattttttaaatcagtgtttcatgccaacaactgctttatttcagACGAAAAAATACTTCAAGGAAATTGGTGTTCATGCTGACGTTAAATATATCGATCCAACGTACATGATCCGTGCATGTCGAGCAAATGCTTCTGATGGAA
| | || ||| ||| || | | ||||| | | | | ||| | ||| | | || | | | | | ||| ||||| | || || | ||||| || || || || || || |||||||| |||||||||||||| || |||||||| ||||||||||| |||
-taagcgttcggtcactgagatcaccgaagtagaaattagtgtctgtttacttgagaggatttccactcattcatgtatcctgcgatatttcgcactgcagGTAAAAAACCATTTTAAAAATATTGGAGTAGCAGCGGATGTGAAGTACATCGATCCTACGTACATGATCCGAGCCTGTCGAGCTAATGCTTCTGACCGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttcatttaaattttttaaatcagtgtttcatgccaacaactgctttatttcagACGAAAAAATACTTCAAGGAAATTGGTGTTCATGCTGACGTTAAATATATCGATCCAACGTACATGATCCGTGCATGTCGAGCAAATGCTTCTGATGGAA
ctttatttc CT-rich tract
atttaaattttttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttgagtatggtttctgttgcatattctataatgcagatatctgtcttcatttaaattttttaaatcagtgtttcatgccaacaactgctttatttcagACGAAAAAATACTTCAAGGAAATTGGTGTTCATGCTGACGTTAAATATATCGATCCAACGTACATGATCCGTGCATGTCGAGCAAATGCTTCTGATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - -gtttctg
- - - - - - - - - -tgcatat
- - - - - - - - - - - - - - - taatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caactgc