Sequence
atgc intronic sequence ATGC exonic sequencegtgtgcaagttttttccaccctgcatccccaaattaccatattattttttctcattgcactttctatgcgcagAAATCGTCTTCGCTTGCTTACTCAGTTTTTGGAGCATCTTGTAAGTGAGGGAAGCCAGGATGTGCATGTACATAATGCTCTGGGTAAAATTATCATTGAC
Basic information
species | Glycine max |
transcript | GLYMA14G37510.1 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G057576_T01 (Zea mays), 3'ss of exon 21
gtgtgcaagttttttccaccctgcatccccaaattaccatatt----attttttctc-------attgcactttct-----atgcg---cagAAATCGTCTTCGCTTGCTTACTCAGTTTTTGGAGCATCTTGTAAGTGAGGGAAGCCAGGATGTGCATGTACATAATGCTCTGGGTAAAATTATCATTGAC
|| | || ||| || | || |||| | || || ||| | | || || | | ||| | ||| || || || || ||||||||||| || ||||||||||| || ||||| || ||||| ||||||||||| || |||||||| || ||||| ||||| |||
--gtttgaattctttattcctggggtctgcaaagtgacaagtttcacattccctttttaagtggatcacatctgtttgaatatgtgtatcagGAACCGCCTACGGTTGCTTACTCAATTCTTGGAGCATCTAGTGAGTGAAGGTAGCCAAGATGTGCATGTCCACAATGCTCTTGGGAAAATCATCATCGAC
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G111355_T02 (Zea mays), 3'ss of exon 2
--------------gtgtgcaagttttttccaccctgcatccccaaattaccatattattttttctcattgcactttctatgcgcagAAATCGTCTTCGCTTGCTTACTCAGTTTTTGG-AGCATCTTGTAAGTGAGGGAAGCCAGGATGTGCATGT----ACATAATGCTCTGGGTAAAATTATCATTGAC-----------
| | ||||| | | | | ||| | | | ||| || | | ||||| || | | || || | | | | ||| | | | | || | ||| ||| | || | ||| | ||
gtttgtttttcatatcctcccagtttacttattcacatgagtgaaggtagccaagatgtgcatgtccataatgctcttggta-----aaatcatcattgacagCAACAACAATCCTGAGCATTTCCTTACTACCAACCCATTTTACGACTCTCGTGTTGTGGGTAAATATTGTGAAAAGCGGGATCCTACACTTGCTGTTGTT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 22
-------------gtgtgcaagttttttccaccctgcatccccaaattaccatattatt-ttttctcattgcactttctatgcgcagAAATCGTCTTCGCTTGCTTACTCAGTTTTTGGAGCATCTTGTAAGTGAGGGAAGCCAGGATGTGCATGTACATAATGCTCTGGGTAAAATTATCATTGAC
|| |||||| || || | | | | |||| ||||| || | | ||||||||||||| || || || |||||||| |||||||||||||| |||||||| ||||||||||||||||| |||||||||||||||||||| ||||| |||
gtgcattgtttttacctgtgtaccgtttccatta-atatttttaattcttattgctttcgttttatcattttgtgttttgtttgcagAAATCGTCTCCGTTTACTCACTCAGTTCTTGGAGCATCTTGTGAGTGAGGGTAGCCAGGATGTGCATGTTCATAATGCTCTGGGTAAAATCATCATAGAC
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 20
lower sequence: EFJ24508 (Selaginella moellendorffii), 3'ss of exon 22
gtgtgcaagttttttccaccctgcatccccaaattaccatattattttttctcattgcactttctatgcgcagAAATCGTCTTCGCTTGCTTACTCAGTTTTTGGAGCATCTTGTAAGTGAGGGAAGCCAGGATGTGCATGTACATAATGCTCTGGGTAAAATTATCATTGAC
|| | | || | | | |||||| | ||| |||| ||| ||||| || | | || ||||||||||||||||| || || || || || ||||| || |||||||| || ||||| || || ||||||||||| ||
-------------gtctgtttcgttttttcatgt-atctcattattgagcttaattttcttttc------cagTAATCGGCTGAGACTTCTCACTCAGTTTTTGGAGCACCTGGTTAGCGAAGGTAGCCAAGACGTGCATGTGCACAATGCGCTCGGAAAAATTATCATCGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccctgcatccccaaattaccatattattttttctcattgcactttctatgcgcagAAATCGTCTTCGCTTGCTTACTCAGTTTTTGGAGCATCTTGTAAGTGAGGGAAGCCAGGATGTGCATGTACATAATGCTCTGGGTAAAATTATCATTGAC
ttttttctcattgcac CT-rich tract
aaattaccatattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgcaagttttttccaccctgcatccccaaattaccatattattttttctcattgcactttctatgcgcagAAATCGTCTTCGCTTGCTTACTCAGTTTTTGGAGCATCTTGTAAGTGAGGGAAGCCAGGATGTGCATGTACATAATGCTCTGGGTAAAATTATCATTGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG