Sequence
atgc intronic sequence ATGC exonic sequencegtaatccctgatctgattaatacactctgattttttcacataggtgtggttgtgggttagtgcatccgtaaagcttgattttttgttttgatatatctatatcttttgaattgcttacataccattctgtgttggcatcttcagTACACTTTTCGTCACATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGTATTATTCTTGACATCTTGATCTGCAATTGGTTTG
Basic information
species | Glycine max |
transcript | GLYMA10G41430.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 7
gtaatccctgatctgattaatacactctgattttttcacataggtgtggttgtgggttagtgcatccgtaaagcttgattttttgttttgatatatctatatcttttgaattgcttacataccattctgtgttggcatcttcagTACACTTTTCGTCACATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGTATTATTCTTGACATCTTGATCTGCAATTGGTTTG
|| | | | | ||| ||| ||||| || | ||| | | | || || | || |||||| || ||| ||| ||||||||| || ||||||||||||||||||||||||||||||||||| ||| | || ||||| |||||||||||||||||||
-------------------------------------------gtatactctttatgttgtggtcaaataactcttgacttgtgctttccaaacccaggttcctaatgtagtg-ttacat--------gtattg-------cagCTCACTTTTCGCCATATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGCATTGTCCTAGACATATTGATCTGCAATTGGTTTG
upper sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
gtaatccctgatctgattaatacactctgattttttcacataggtgtggttgtgggttagtgcatccgtaaagcttgattttttgttttgatatatctatatcttttgaattgcttacataccattctgtgttggcatcttcagTACACTTTTCGTCACATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGTATTATTCTTGACATCTTGATCTGCAATTGGTTTG
| || | | || | | | || || ||| | || | | | || || | || || | ||| || ||| |||||||||||| ||||||||||||||||| |||||||||||||| || ||| | || ||||| ||||| |||||||||||||
------------------------------------------------------gtatactctttttgttgtggtcaaattcctgacttgtgctttccagac---tcaggttcctaatgtagagttgtatgtg-----ctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
upper sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatccctgatctgattaatacactctgattttttcacataggtgtggttgtgggttagtgcatccgtaaagcttgattttttgttttgatatatctatatcttttgaattgcttacat-acc---attctgtgttggcat-cttcagTACACTTTTCGTCACATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGTATTATTCTTGACATCTTGATCTGCAATTGGTTTG
|| | | | || | | | || | | | || |||||||||| | | | | | | || | | ||| | | | || | || ||| |||||||| || ||||| ||||||||||||||||||||||||||||||||| ||||||| |||||||| ||||| |||||||
---------------------------------------------gttggtctttgtcttcgttttcttata-ttacaggttccaatttgatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
upper sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 8
gtaa--tccctgatctgattaatacactctg-attttttcacataggt-gtggttgtgggttag---tgcatccgtaaagcttgattttttgttttgatatatctatatct-tttgaattgcttacataccattctgtgttggcatcttcagTACACTTTTCGTCACATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGTATTATTCTTGACATCTTGATCTGCAATTGGTTTG
|| | | | || |||||| | | | || |||| | | ||||| || | || | || || ||| | | | || || | | | || ||||| || || | | | | ||| || ||||| ||||| || || ||||| ||||| ||||| ||||| ||||||||||||||||| || ||||| || |||||||||||||||
gtcagtttcttggtctgataatgttattttgtgttttgcctcttaggttgtcatggttaatctaccttgtatgtctaagaatgtgctcatgtttctgttctcaaactgactgtttgagttctataaagttaagttttatttgtcaatttcagCTTACTTTCCGCCATATGTTACCAAACTTCAATGAGTGTTGGTGGGACAGTATTATCCTCGACATTTTAGTCTGCAATTGGTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatatatctatatcttttgaattgcttacataccattctgtgttggcatcttcagTACACTTTTCGTCACATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGTATTATTCTTGACATCTTGATCTGCAATTGGTTTG
tgcttac putative branch site (score: 2)
catcttc putative PPT
tatatcttttgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatccctgatctgattaatacactctgattttttcacataggtgtggttgtgggttagtgcatccgtaaagcttgattttttgttttgatatatctatatcttttgaattgcttacataccattctgtgttggcatcttcagTACACTTTTCGTCACATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGTATTATTCTTGACATCTTGATCTGCAATTGGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG