Sequence
atgc intronic sequence ATGC exonic sequencegtaagcccttatctgattaatacactccgattttttcacataggtgtggttatgggttagtgcatccataaagcttgtttttcttttgatatatctatatcgtttgaattgcttacataacatctgtgttgtaatcttcagTATACTTTTCGTCACATGTTGCCAAATTTCAATGAGTGCTGGTGGGACAGTATTATTCTTGACATTTTGATCTGCAATTGGTTTG
Basic information
species | Glycine max |
transcript | GLYMA20G25830.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 7
gtaagcccttatctgattaatacactccgattttttcacataggtgtggttatgggttagtgcatccataaagcttgtttttcttttgatatatctatatcgtttgaattgcttacataacatctgtgttgtaatcttcagTATACTTTTCGTCACATGTTGCCAAATTTCAATGAGTGCTGGTGGGACAGTATTATTCTTGACATTTTGATCTGCAATTGGTTTG
|| | | | | ||| |||| |||| || || | | | | | | | | | | ||| ||| ||| |||||||| || ||||||||||||||||| ||||||||||||||||| ||| | || ||||| |||||||||||||||||||
-------------------------------------------gtatactctttatgttgtggtcaaataactcttgacttgtgctttccaaacccaggttcctaatgtagtgt------tacatgtattg-------cagCTCACTTTTCGCCATATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGCATTGTCCTAGACATATTGATCTGCAATTGGTTTG
upper sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
gtaagcccttatctgattaatacactccgattttttcacataggtgtggttatgggttagtgcatccataaagcttgtttttcttttgatatatctatatcgtttgaattgcttacataacatctgtgttgtaatcttcagTATACTTTTCGTCACATGTTGCCAAATTTCAATGAGTGCTGGTGGGACAGTATTATTCTTGACATTTTGATCTGCAATTGGTTTG
| || | | | | | || || | | | | || || | || | ||| | || || ||| ||||||||||| |||||||||||||||||||||||||||||||| || ||| | || ||||| ||||| |||||||||||||
------------------------------------------------------gtatactctttttgttgtggtcaaattcctgact-tgtgctttccagactcaggttcctaatgtagagt-tgtat-gtg--ctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
upper sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 10
lower sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagcccttatctgattaatacactccgattttttcacataggtgtggttatgggttagtgcatccataaagcttgtttttcttttgatatatcta----tatcgtttgaattgc-ttacataacatctgtgtt-gtaatcttcagTATACTTTTCGTCACATGTTGCCAAATTTCAATGAGTGCTGGTGGGACAGTATTATTCTTGACATTTTGATCTGCAATTGGTTTG
|| | | || || || ||| | ||| ||| ||||||| | ||||| || || | || || | | | || | ||| ||| ||||||||| || ||||| ||||||||||| ||||||||||||||||||||| ||||||| || ||||| ||||| |||||||
-------------------------------------------gttggtctttgtcttcgttttcttatattacaggttccaattt-gatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
upper sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 8
gtaagccctt--atctgattaatacactccg-attttttcacataggt----gtggtta--tgggttagtgcatccataaa---gcttgtttttcttttgatatatctatatcgtttgaattgcttaca-taacatctgtgttgtaatcttcagTATACTTTTCGTCACATGTTGCCAAATTTCAATGAGTGCTGGTGGGACAGTATTATTCTTGACATTTTGATCTGCAATTGGTTTG
|| || | |||||| | | | | |||| | | ||||| |||||| | || || | || ||| | ||||| || | | | |||||| || || | | | | | |||| | ||||| |||||| || || ||||| ||||| ||||||||||| ||||||||||||||||| || |||||||| |||||||||||||||
gtcagtttcttggtctgataatgttattttgtgttttgcctcttaggttgtcatggttaatctaccttgtatgtctaagaatgtgctcatgtttctgttctcaaactgac--tgtttgagttctataaagttaagttttatttgtcaatttcagCTTACTTTCCGCCATATGTTACCAAACTTCAATGAGTGTTGGTGGGACAGTATTATCCTCGACATTTTAGTCTGCAATTGGTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatatatctatatcgtttgaattgcttacataacatctgtgttgtaatcttcagTATACTTTTCGTCACATGTTGCCAAATTTCAATGAGTGCTGGTGGGACAGTATTATTCTTGACATTTTGATCTGCAATTGGTTTG
tcttc CT-rich tract
tatctatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcccttatctgattaatacactccgattttttcacataggtgtggttatgggttagtgcatccataaagcttgtttttcttttgatatatctatatcgtttgaattgcttacataacatctgtgttgtaatcttcagTATACTTTTCGTCACATGTTGCCAAATTTCAATGAGTGCTGGTGGGACAGTATTATTCTTGACATTTTGATCTGCAATTGGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG