Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttcttagacaaatgtattgctatctatgtgtatgtgctattatatatttttatgaaatatttatgggattagaaataattaagcgcccatttttgcagGTACATAGCTTGGATTTTAGTGGCAGCTGTGTATCATCTTCCTAGCTTTCAGTCAATGGGAGTGGATATGAGGATGAATCTATCTTTGTTTTTGACAATA
Basic information
species | Glycine max |
transcript | GLYMA14G08860.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G135839_T01 (Zea mays), 3'ss of exon 2
--------------gtgagtttctt---agacaaatgtattgctatctat--gtgtatgtgctattatatatttttatgaaatatttatgggattagaaata------attaagcgcccattt----ttgcagGTACATAGCTTGGATTTTAGTGGCAGCTGTGTATCATCTTCCTAGCTTTCAGTCAATGGGAGTGGATATGAGGATGAATCTATCTTTGTTTTTGACAATA
| ||||| | |||| ||| | | | | || |||| | | | | | || | || ||| | | | || | | | ||||||||| | |||||||||| | ||| | |||| |||||||||||||| ||||||||||| || |||||| | ||||| || || | || |||||||||
gtacgtatccactttcaggcttcttcaaaagtcaatgctttggcgttttttatttcattggctagagaagctctatgtcaattgctttaattgttatgtacatcactcgtatagtggtattgtacaattgcagGTATGTTGCTTGGATTTGCTTTGCATCCCTGTACCATCTTCCTAGCTTCCAGTCAATGGGGGTTGATATGCGCATGAACCTCTCGCTTTTCTTGACAATA
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagtttcttagacaaatgtattgctatctatgtgtatgtgctattatatatttttatgaaatatttatgggattagaaataattaagcgcccatttttgcagGTACATAGCTTGGATTTTAGTGGCAGCTGTGTATCATCTTCCTAGCTTTCAGTCAATGGGAGTGGATATGAGGATGAATCTATCTTTGTTTTTGACAATA
|| ||| || | || || || | ||| ||||| | | | | ||| ||| ||||| | || || |||||||| || ||||||||||| |||||| ||||||||||||||| |||||||||||||| ||||| ||||||||||| | || |||||| | |||||
---------gtaagcaaccgt--tact-tccatcttctgaaaatatctaatattgatttcac---tctataaaatttcc--taattctttgtt--ttggtgtagGTACATTGCCTGGATTTTAGTTGCAGCTTTGTATCATCTTCCTAATTTTCAGTCAATGGGTTTGGATTTGAGGATGAATTTGTCCTTGTTTCTAACAATT
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G23000.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgagtttcttagacaaatgtattgctatctatgtgtatgtgctattatatatttttatgaaatatttatgggattaga---aataattaagcgcccatttt-tgcagGTACATAGCTTGGATTTTAGTGGCAGCTGTGTATCATCTTCCTAGCTTTCAGTCAATGGGAGTGGATATGAGGATGAATCTATCTTTGTTTTTGACAATA
| || ||| | |||| | | || ||| | | ||| | ||| || | |||| | | || || |||||||| |||||||||||||| |||||| |||| ||||| || || |||||||||||||| ||||| ||||||||||| | || |||||| | |||||
---------------------------gtaagtgaatatcttttattctgt-cttccatggggtctatatcaaaaaagatttaacacttaaaaggttttgttgtgtagGTACATTGCTTGGATTTTAGTTGCAGCTTTGTACCATCTCCCAAGTTTTCAGTCAATGGGTTTGGATTTGAGGATGAATTTGTCCTTGTTTCTAACAATT
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 2
-----------------gtgagtttcttagacaaatgtattgctatctatgtgtatgtgctattatatatttttatgaaatatttatgggatta--------gaaataattaagc------gcccatttttg-cagGTACATAGCTTGGATTTTAGTGGCAGCTGTGTATCATCTTCCTAGCTTTCAGTCAATGGGAGTGGATATGAGGATGAATCTATCTTTGTTTTTGACAATA
|| |||||| | ||| || | | || | | ||| | || ||||| || | || | | |||| || ||||| || |||||| |||||| |||| |||||||||||||||||| | |||||||||||||| |||| ||||||||||||||||||||||||||||| ||||||||||||||||||
gtaagtattttgctctcatgtatttcttttgcttgtgtttttat-tgtacctccacgtgtactcatctatttctaattacaatacaggaaattactcacattgagctaattgtcttggttaacctttttttggcagGTATGTAGCCTGGATTTTAGTGGCAGCTATTTATCATCTTCCTAGTTTTCTATCAATGGGAGTGGATATGAGGATGAATCTTTCTTTGTTTTTGACAATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatttttatgaaatatttatgggattagaaataattaagcgcccatttttgcagGTACATAGCTTGGATTTTAGTGGCAGCTGTGTATCATCTTCCTAGCTTTCAGTCAATGGGAGTGGATATGAGGATGAATCTATCTTTGTTTTTGACAATA
cccattttt CT-rich tract
tttatgaaatatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttcttagacaaatgtattgctatctatgtgtatgtgctattatatatttttatgaaatatttatgggattagaaataattaagcgcccatttttgcagGTACATAGCTTGGATTTTAGTGGCAGCTGTGTATCATCTTCCTAGCTTTCAGTCAATGGGAGTGGATATGAGGATGAATCTATCTTTGTTTTTGACAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG