Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgaccatctttcttctgtacactgtcactgagtagagtttgttgaaacttgaaacacacatttttgttttggagatccttaccctctttgcaatcagGTAAAAAACCATGGGTTATCAATTTTCCTCTTGCAAGCTGGGATGTTGGGGACCCTTGAAGCACTTTGGGAGGTCTTCCCTCTATTTACAAATACTGGAT
Basic information
species | Glycine max |
transcript | GLYMA14G02820.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G02820.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0090g00130.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtgaccatctttcttctgtacactgtcactgagtagagtttgttgaaacttgaaacacacatttttgttttggagatccttaccctctttgcaatcagGTAAAAAACCATGGGTTATCAATTTTCCTCTTGCAAGCTGGGATGTTGGGGACCCTTGAAGCACTTTGGGAGGTCTTCCCTCTATTTACAAATACTGGAT
|||||| || | || | ||| | || | |||| || | || | | ||| | | | |||||||| ||| |||||||| |||||| | ||| | ||| |||| ||| |||||||||||||| |||| ||||||||||| || ||||| |||||||| |||| |||||||||||||
gtaagttacta-ctggatagcacttactacctcttctaattgtttcttagtattt--attcctgattcataatat----atccttactttctactaaatcagGTGAAAAACAAAGGGGTTTCAGTTTTTCTCATGCAAGCTGGGATGCTGGGAACCCTTGAAGCTCTCTGGGATGTCTTCCCATTATTCACAAATACTGGAT
upper sequence: GLYMA14G02820.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0090g00100.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtgaccatctttcttctgtacactgtcactgagtagagtttgttgaaacttgaaacacacatttttgttttggagatccttaccctctttgcaatcagGTAAAAAACCATGGGTTATCAATTTTCCTCTTGCAAGCTGGGATGTTGGGGACCCTTGAAGCACTTTGGGAGGTCTTCCCTCTATTTACAAATACTGGAT
|||||| || | || | ||| | || | |||| || | || | | ||| | | | |||||||| ||| |||||||| |||||| | ||| | ||| |||| ||| |||| ||||||||| ||| ||||||||||| || ||||| |||||||| |||| |||||||||| ||
gtaagttacta-ctggatagcacttactacctcttctaattgtttcttagtattt--attcctgattcataatat----atccttactttctactaaatcagGTGAAAAACGAAGGGGTTTCAGTTTTTCTCATGCACGCTGGGATGCGGGGAACCCTTGAAGCTCTCTGGGATGTCTTCCCATTATTCACAAATACTGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaaacttgaaacacacatttttgttttggagatccttaccctctttgcaatcagGTAAAAAACCATGGGTTATCAATTTTCCTCTTGCAAGCTGGGATGTTGGGGACCCTTGAAGCACTTTGGGAGGTCTTCCCTCTATTTACAAATACTGGAT
tccttac putative branch site (score: 2)
tccttaccctctttgc CT-rich tract
atttttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgaccatctttcttctgtacactgtcactgagtagagtttgttgaaacttgaaacacacatttttgttttggagatccttaccctctttgcaatcagGTAAAAAACCATGGGTTATCAATTTTCCTCTTGCAAGCTGGGATGTTGGGGACCCTTGAAGCACTTTGGGAGGTCTTCCCTCTATTTACAAATACTGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC