Sequence
atgc intronic sequence ATGC exonic sequencegttctcttactttctttgctgtaatctctatccatgagccaattggtgttatatagttttgttttgtttttatatttttttaaatatttactatttttagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
Basic information
species | Glycine max |
transcript | GLYMA14G37510.1 |
intron # | 14 |
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 14
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 16
---------gttctcttactttctttg--ctgtaatctctat----ccatga-gccaattggtgttatatagttttgttttgtttttatatttt----tttaaatatttactatttttagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
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gttagcagttttttcccaataagttcggccttttacctttgcattgccatgttgctcagtggcttcttttacctttatactgttgtgttgctcagtagtttctgtttgaattgattgtagGTTTTGGAGATCAACTTGGTCACTTACCCAAATGTTGCTGATGCCATCCTTGCTAATGGTATGTTCAGTCATTATGATCGCCCTCGTGTTGCTCAGCTTT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 16
--------------------------gttctcttactttctttgctgtaatctctatccatgagc-caattggtgttatatagttttgttttgtttttatatttttttaaatatttactatttttagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
| || || | || | || || | || || | || ||||| ||| ||||| || | | ||| | | | | || ||||| |||| || || | || || | ||||||||||||||||| || | || ||||| ||||| ||||||||||| || || || ||||||||||||
gttagcagttttttcccaataagttaggccttttgcctt-tgcattgccatgttgctcagtggcttcttttacctttatactgttgtgtttgtgttgctcagtagtttctgtttgaattggttgtagGTTTTGGAGATCAACTTGGTCACTTACCCAAATGTTGCTGATGCCATCCTTGCTAATGGTATGTTCAGTCATTATGATCGCCCTCGTGTTGCTCAGCTTT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
gttctcttactttctttgctgtaatctctatccatgagccaattggtgttatatagttttgtt--ttgtttttatatttttttaaatatttactatttt-tagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
||| | | | | || || || |||| | ||| | ||| | || | || | | | | || | | | | || ||||| |||| || || | ||||| | ||||||||||| ||||| || | || ||||| ||||| ||||||||||||||||| || ||||||||||| |
-----gttagtatttgattgttcatttcaat--atgaac--atttgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 16
gttctcttactttctttgctgtaatctctatccatgagccaattggtgttatatagttttgttttgtttttatatttttttaaatatttactatttttagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
| | | || | | | | | | | ||| | ||||||||||| ||| ||| | || | | | | | || | || |||| ||||||| ||||| || || ||||||||||| || ||||||||||| || ||||| ||||||||||| ||||| || ||||| ||||| ||||| |
--------------gtcgatctatttttttttcctaaatgaat---ttttatatagtttc-tttagttct---gcttcctaataattctgctctattcagGTTTTGGAAATCAATCTGGTTACATTTCCAAATGTCGCAGATGCTATATTAGCTAATGGTATGTTTAGTCACTATGATCGCCCACGTATTGCACAGCTCT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 14
lower sequence: PP1S270_53V6.1 (Physcomitrella patens), 3'ss of exon 16
gttctcttactttctttgctgtaatctctatccatgagccaattggtgttatatagttttgttttgtttttatattttt--ttaaatatttac-tatttttagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
| ||| | ||| | | | | || | |||| | | || | | | | | | | | || | | | ||| || ||||| |||||||| || |||||||| || || ||||| || ||| | |||||||| || | |||||||||||||| || |||||||||||||
-----------------gtaaaaatttaaatctagcttctcagttacatttgctgattttttatgattccttaactcatgctgtactttccacgtgtatacagGCTCTCGAAATCAATCTTGTCACTTTTCCAAACGTCGCAGATGCGATTTTGACTAATGGCATCTTCAAACATTATGACCGTCCTCGAATTGCTCAGCTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgttatatagttttgttttgtttttatatttttttaaatatttactatttttagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
ctattttt CT-rich tract
ttttgtttttatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctcttactttctttgctgtaatctctatccatgagccaattggtgttatatagttttgttttgtttttatatttttttaaatatttactatttttagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT