Sequence
atgc intronic sequence ATGC exonic sequence...cttcatagaacaaaccttaagtttgccttttcaaaaaagaaaaaaatggcagtaagatacattgttcagtaaactagaattattggttctttccttgtagATCCCAACTAATTCATCTGGTCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTCCTCGTTGTT
Basic information
| species | Glycine max |
| transcript | GLYMA01G38640.3 |
| intron # | 3 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G38640.3 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g08400.1 (Oryza sativa), 3'ss of exon 6
----cttcatagaacaaaccttaagtttgccttttcaaaaaagaaaaaaatggcagtaagatacattgttcagtaaactagaattattggttctttccttgtagATCCCAACTAATTCATCTGGTCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTCCTCGTTGTT
|| | | ||| | ||| | | | || | | | | || || | | | | ||| | | ||| | |||| || || ||| ||| || ||||| |||||||| |||||||||||| ||||||||||||| |||||||||||| | || || ||||| | || |
aataattgacatgtgaaagtt---gttaacatgtgttaagtaacagccgacaatttctttttgtttttttaaatgcgccatc-ttacagttccttcttattcagATTCCTACAAATATGAATGGCCTGATTGAATATAGAGCACATCCTTTCTGGTTACAAAAATACTGTCCATCACATGAGGTGGACGGTACTCCAAGATGCT
upper sequence: GLYMA01G38640.3 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G017845_T04 (Zea mays), 3'ss of exon 6
-------------------------------------------------------------------cttcatagaacaaaccttaagtttgccttttcaaaaaagaaaaaaatggcagtaagatacattgttca--gtaaactag------------aattattggttctttccttgtagATCCCAACTAATTCATCTGGTCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTCCTCGTTGTT
||| | | | | | | ||| | | |||| | |||||| |||| | || | ||| || || ||| || |||| || || ||| ||| || ||||| ||||| || |||||||||||| ||||||||||||| || |||||||| | ||||| ||||| | || |
gtaaggatcactttatttaccctgaccgatctgtttatgctataagttttttctgttgaacattttacttgcctgtttgtgctaataaaatctatctccaatatcttggagaatgtgctttctctacatttttcatgattgacatgtttactcttgctaatatctgattacttcttttcagATTCCTACAAATATGAATGGCCTTATTGAATATAGGGCACATCCTTTCTGGGTACAAAAATACTGTCCTTCACATGAAATGGATGGTACTCCGAGGTGCT
upper sequence: GLYMA01G38640.3 (Glycine max), 3'ss of exon 3
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 6
cttcatagaacaaaccttaagtttgccttttcaaaaaagaaaaaaatggcagtaagat-acattgttcagtaaactagaattattggttctttccttgtagATCCCAACTAATTCATCTGGTCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTCCTCGTTGTT
| | | | ||| ||| || | | | |||| | | || | | | | ||| | | ||| | | | ||||| || || ||| || ||||||| ||||||||||| || ||||| || ||| | ||||| || || || |||||||||| |||||| |||||||| ||||
gtgagtgatagccaacttctgttgatctctatattttacccaaaatttgttcccaggttgtactaagct-taatgtgtatgtataaatgtaactcctctagATTCCGACAAATCCAGCTGGTCTTATTGAGTATAGGGCACATCCCTTTTGGATGCAAAAGTATTGTCCTTCACATGAGCGTGATGGAACTCCTCGGTGTT
upper sequence: GLYMA01G38640.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g01040.t01 (Vitis vinifera), 3'ss of exon 10
--cttcatagaa--caaaccttaagtttgccttttcaaaaaagaaaaaaatggcagtaagatacattgttcagtaaactagaattattggttctttccttgtagATCCCAACTAATTCATCTGGTCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTCCTCGTTGTT
|| |||| | | | | | | ||| | | || || | | ||| | || | |||| || | | || | |||| ||| | ||| || |||| | ||||||||||| |||||||||||| | ||| | ||||| || |||||||||| |||||| |||||||| ||||
cattttgaagaaactagatgtgcaatgtatatttgtttcttttgtatgtttttca-caaatgatactgtagcattaa-tgtaattctt--tcccttttgtacagATTCCATCAAATGCAGCTGGAGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTT
upper sequence: GLYMA01G38640.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 3'ss of exon 7
----cttcatagaacaaaccttaagtttgccttttcaaaaaagaaaaaaatggcagtaagatacattgttcagtaaactagaattattggttctttccttgtagATCCCAACTAATTCATCTGGTCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTCCTCGTTGTT
| ||| | | | | | | | ||| | | || || | | ||| | || | | || || | |||| | |||| ||||| ||| || |||| || |||||||||||||| ||||| |||||| | ||||| ||||| || ||||| |||| |||||| |||||||| ||||
tattttgaataaactagatgtgcaatgtatatttgtttcttttgtatgtttttca-caaatgatactgtagcatcaa-tgtatttctt--tcctttttgtacagATTCCAACAAATGCAGCTGGACTTATTGAGTATAGAGCACATCCGTTCTGGATGCAAAAGTACTGTCCCTCACACGAGCATGATGGAACTCCTCGGTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggcagtaagatacattgttcagtaaactagaattattggttctttccttgtagATCCCAACTAATTCATCTGGTCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTCCTCGTTGTT
ttggttctttcctt CT-rich tract
taaactagaattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcatagaacaaaccttaagtttgccttttcaaaaaagaaaaaaatggcagtaagatacattgttcagtaaactagaattattggttctttccttgtagATCCCAACTAATTCATCTGGTCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTCCTCGTTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - -acaaacc
- - - - - - - - - - gtttgcc
- - - - - - - - - - - - - - - - aaaaaag
- - - - - - - - - - - - - - - - - - - -aaaaaaa
