Sequence
atgc intronic sequence ATGC exonic sequencegtatttttgtttttcacctgttgatttgtgtttttctgtgttttaagcatgaatgagtatataaaatatggccagtgattttacctgtattaccatttacctctcatcagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATTTAAGGAGAAAACCTCATGTTGTTAAA
Basic information
| species | Glycine max |
| transcript | GLYMA13G07090.1 |
| intron # | 1 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G07090.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os08g31840.2 (Oryza sativa), 3'ss of exon 2
gtatttttgtttttcacctgttgatttgtgtttttctgtgttttaagca-tgaatgagtatataaaatatggccagtgattttacctgtattaccatttacctctcatcagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATTTAAGGAGAAAACCTCATGTTGTTAAA------
| |||||| | || || || | || ||| | | | || | | | | | | | || | | | || | | || | | | ||||||| | || ||| | | |||||||||||||||||| || |||||||| ||||||||||| |||||| | || ||||| |||||||| ||||||
--acttttgtaatgcatcta-------gtttacttttgtaaagtgggtactggcttactgtgcattactt---cactaacctcacagctgaca-----tatttttgggtaaccatagGGACGGAAGGAGGATAAAAAAATGGAGGAAGATGATAGGTGTTGGTGGTAGTGACTGGAAACATTATGTTAGAAGAAACCCTCATGTGGTTAAAAGAAGA
upper sequence: GLYMA13G07090.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G047223_T03 (Zea mays), 3'ss of exon 2
gtatttttgtttttcacctgttgatttgtgtttttctgtgttttaagcatgaatgagtatataaaatatggccagtgattttacctgtattaccatttacctctcat-cagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATTTAAGGAGAAAACCTCATGTTGTTAAA------
| || ||| ||| | ||| || | | ||| | ||| | | | | |||| ||||| | |||| | | || | ||||||||||| |||||| | |||||||||||||||||||| || |||||||| | |||||||||||||||| | || || || |||||||| ||||||
--acttgtgtaaatcagttattgtcttacttcaccttcctatttc--tctaaataaact------accttacaagtgcttttatt-------ctatttcttttttatgttgctatagGGAGGAAAGAAGGATAAGAAAATGGAGGAAGATGATAGGTGTTGGTGGTAATGACTGGAAGCATTATGTTAGAAGGAACCCTCATGTGGTTAAAAGGCGA
upper sequence: GLYMA13G07090.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G15930.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatttttgtttttcacctgttgatttgtgtttttctgtgttttaagcatgaatgagtata-taaaatatggccagtgattttacctgtattaccatttacctctcatcagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATTTAAGGAGAAAACCTCATGTTGTTAAA------
|| | ||| ||| | ||| || | | || | |||| ||| || | | || || |||| ||| | | | | ||| | |||||||||| || || | ||||||||||||||||||||| ||| || ||||| ||||||||||| | |||||||||||||||||||| ||
--------gtatgtcaa-tgtgaaaaagtgattgttttgtcctttgttgttgttgaggatagtatattgtgctttgttatttaaccatggatgctaaattccttt----------agGGAGGAGAAGAGAGTGACAAAATGGAGGAAGATGATTGGAACTGGGGGTAGTGATTGGAAGCATTACGTTAGGAGAAAACCTCATGTTGTCAAGAGGCGG
upper sequence: GLYMA13G07090.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G02460.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatttttgtttttcacctgttgatttgtgtttttctgtgttttaagcatgaatgagtatataa-aatatggcc-agtgattttacctgtattaccatttacctctcatcagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATTTAAGGAGAAAACCTCATGTTGTTAAA------
| ||| | | |||| | | || || |||||| || || | ||| || ||| | | ||||| |||||||||| ||| ||||||||||||||||||||||||||||| || ||||| |||||||||||| | |||||||||||| ||||||| | |
---------------------------------gtatgtcctgagggagcgaataattttaaaagaatatgattgagagagtgagagtgtgtt----tttgttgttggctatctatagAGAGGAGAGAAAGGTGAGAAAATGGAGGAAGATGATTGGGGTTGGAGGGAGTGATTGGAAGCATTATGTTAGGAGAAAACCTAATGTTGTCAGAAGGCGT
upper sequence: GLYMA13G07090.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 2
gtatttttgtttttcacctgttgatttgtgtttttctgtgttttaagcatgaatgagtatataaaatatggccagtgattttacctgtattaccatttacctctcatcagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATTTAAGGAGAAAACCTCATGTTGTTAAA------
| || | | || ||||||| | | |||||| | || ||||| || || | ||||||| | | || | | |||| |||||| ||| ||||||||||||||||||| |||||||| |||| || ||||| ||||||||||| | ||||| |||||| |||| ||||||
-ttttgcaaaatggagtttttttggctgtgtttgtgtatgtttttctcttgc-------tataag-cattaccggatattttac-tacaagacataaggtcctttttcag- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtatataaaatatggccagtgattttacctgtattaccatttacctctcatcagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATTTAAGGAGAAAACCTCATGTTGTTAAA
tttacctctc CT-rich tract
ataaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttttgtttttcacctgttgatttgtgtttttctgtgttttaagcatgaatgagtatataaaatatggccagtgattttacctgtattaccatttacctctcatcagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATTTAAGGAGAAAACCTCATGTTGTTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
