Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttttctccacactgactattgttctttagcaaagttatttttcattttttccttaatcgtctctctctctcttttttttccttggcatgcagTCAGATTTGCCTGTAAGGGAGCGGATATTTCTCCTATTAGATGCCACACAAACATCCCTTGGTGGTGCTTCTGGAAAGTTTCCACAGTATTATAATGCAT
Basic information
| species | Glycine max |
| transcript | GLYMA05G33150.2 |
| intron # | 3 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G33150.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM5G834205_T01 (Zea mays), 3'ss of exon 3
gtgagtttttctccacactgactattgtt-ctttagcaaagttatttttcattt----tttccttaatcgtctctctctctcttttttttccttggcatgcagTCAGATTTGCCTGTAAGGGAGCGGATATTTCTCCTATTAGATGCCACACAAACATCCCTTGGTGGTGCTTCTGGAAAGTTTCCACAGTATTATAATGCAT
|| | || || | ||| |||| | | | | || || |||||| ||| ||| | ||| | | ||||| ||||| | ||||| || || | || |||||||| || |||||||| |||||||||||||||||||| ||| | || ||| || ||||| ||| | ||||
gtaacttatttttcactgaatttattatggcaattgtgaaacctgttctcatttggaacttcaccaattgg-tcttgacgtaacacactatcttggt-tgcagACGGATTTACCAGTTCGAGAAAAAATATTTCTTCTGTTAGATGCAACACAAACATCCCTTGGTGGAGCTAAAGCAAGGTTCCCTCAGTACTATGAGGCAT
upper sequence: GLYMA05G33150.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G074764_T01 (Zea mays), 3'ss of exon 4
gtgagtttttctccacactgactattgtt-ctttagcaaagttatttttcattt----tttccttaatcgtctctctctctcttttttttccttggcatgcagTCAGATTTGCCTGTAAGGGAGCGGATATTTCTCCTATTAGATGCCACACAAACATCCCTTGGTGGTGCTTCTGGAAAGTTTCCACAGTATTATAATGCAT
|| | || || | ||| |||| | | | | || || |||||| ||| ||| | ||| | | ||| | ||||| | ||||| || || | || |||||||| || |||||||| |||||||||||||||||||| ||| | || ||| || |||| ||| | ||||
gtaacttatttttcactaaatttattatggcaattgtgaaacctattctcatttggaacttcaccaattga-tcttgacgtaacacactatcttagt-tgcagACTGATTTACCAGTTCGAGAAAAAATATTTCTTCTGTTAGATGCAACACAAACATCCCTTGGTGGAGCTAAAGCAAGGTTCCCTCAGTGCTATGAGGCAT
upper sequence: GLYMA05G33150.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G135568_T01 (Zea mays), 3'ss of exon 3
gtgagtttttctccac--actgactattgttctttagcaaagttatttttcattttttccttaatcgtctctctctctcttttttttccttggcatgcagTCAGATTTGCCTGTAAGGGAGCGGATATTTCTCCTATTAGATGCCACACAAACATCCCTTGGTGGTGCTTCTGGAAAGTTTCCACAGTATTATAATGCAT
|| | || || | | | | | | ||| ||| ||| | || | ||||| ||| || | | | | | | ||||| ||||| | ||||| || || | || |||||||| || ||||||||||| ||||||||||||||||| ||| | ||||||||| ||||| ||| | ||||
gtaacttctttttcgctgaattgagaatgtcagttatgaaacctgttct-catttgaaactttgatgttgatgtagcacactat----cttggt-tgcagACGGATTTACCAGTTCGAGAAAAAATATTTCTTCTGTTAGATGCCACGCAAACATCCCTTGGTGGAGCTAAAGCAAAGTTTCCTCAGTACTATGAGGCAT
upper sequence: GLYMA05G33150.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G123607_T01 (Zea mays), 3'ss of exon 4
gtgagtttttctccacactgactattgtt-ctttagcaaagttatttttcattt----tttccttaatcgtctctctctctcttttttttccttggcatgcagTCAGATTTGCCTGTAAGGGAGCGGATATTTCTCCTATTAGATGCCACACAAACATCCCTTGGTGGTGCTTCTGGAAAGTTTCCACAGTATTATAATGCAT
|| | || || | ||| |||| | | | | || || |||||| |||| ||| | ||| | | ||||| ||||| ||||||| || || | || |||||||| || |||||||| |||||||||||||||||||| ||| | || ||| || ||||| ||| | ||||
gtaacttatttttcactgaatttattatggcaattgtgaaacctgttctcatttggaatttcaccaattgg-tcttgacgtaacacactatcttggt-tgcagACAGATTTACCAGTTCGAGAAAAAATATTTCTTCTGTTAGATGCAACACAAACATCCCTTGGTGGAGCTAAAGAAAGGTTCCCTCAGTACTATGAGGCAT
upper sequence: GLYMA05G33150.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G63640.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgagtttttctccaca-ctgactattg-ttctttagcaaagttatttttcattttttccttaatcgtctctctctctcttttttttccttgg----catgcagTCAGATTTGCCTGTAAGGGAGCGGATATTTCTCCTATTAGATGCCACACAAACATCCCTTGGTGGTGCTTCTGGAAAGTTTCCACAGTATTATAATGCAT
|| ||| |||| ||| | || |||| || ||| | | || | | | | | | | | | || || | | | |||| |||||||||||||| ||| |||| ||||| || | ||||| || ||||| ||||||||||| ||||| || || || || |||||||||| ||||
gtatgttcatctctgtttctggatgttacttctctaccaatttgagagttaagctgcttatagtttgcatattgtttggttggcatttttcgaacactttttagTCGGATTTGCCTGTAAGAGAGAGGATTTTTCTTCTTCTTGATGCAACTCAAACCTCCCTTGGTGGCGCTTCAGGGAAATTCCCTCAGTATTATACAGCAT
upper sequence: GLYMA05G33150.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0031g03190.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtttttctccacactgactattgttctttagcaaagttatttttcattttttccttaatcgtctctctctctcttttttttccttggcatgcagTCAGATTTGCCTGTAAGGGAGCGGATATTTCTCCTATTAGATGCCACACAAACATCCCTTGGTGGTGCTTCTGGAAAGTTTCCACAGTATTATAATGCAT
| |||||| ||| || || || | | | || ||| ||||| | || | | || |||| | | ||| |||| ||||| ||| | ||| ||||||||| || |||||||||||||| ||||| |||||||| ||||||| |||||| || || || || | |||||
--gtgtttttttccccaagaac--atgatttctggc-----cattaactgtttttagttgaagctaaatttgcttatcttttctctc-------acagACAGACTTGCCCGTACGAGAGAAGATATTTCTTCTTTTAGATGCCACACAGACATCACTTGGTGGAGCTTCTGCAAAGTTCCCTCAATACTACAGTGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttcattttttccttaatcgtctctctctctcttttttttccttggcatgcagTCAGATTTGCCTGTAAGGGAGCGGATATTTCTCCTATTAGATGCCACACAAACATCCCTTGGTGGTGCTTCTGGAAAGTTTCCACAGTATTATAATGCAT
ccttaat putative branch site (score: 4)
ttttttccttaatcgt CT-rich tract
attttttccttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttttctccacactgactattgttctttagcaaagttatttttcattttttccttaatcgtctctctctctcttttttttccttggcatgcagTCAGATTTGCCTGTAAGGGAGCGGATATTTCTCCTATTAGATGCCACACAAACATCCCTTGGTGGTGCTTCTGGAAAGTTTCCACAGTATTATAATGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
