Sequence
atgc intronic sequence ATGC exonic sequence...ttgcagattttgcacatcagatttattatttactatgattaatttagctgattaaagtttgaacctggaattctaatatctgttgatgacaatgtgtaagGTTCGTGAGTTGGCCGAAAAGGAGCCTGAAAATGGCGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACAACAATACTTATTGGCACAAC
Basic information
species | Glycine max |
transcript | GLYMA14G01920.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G01920.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g39640.1 (Oryza sativa), 3'ss of exon 1
ttgcagattttgcacatcagatttattatttactat-gattaat--ttagctgattaaagtttgaacctggaattctaatatctgttgatgacaatgtgtaagGTTCGTGAGTTGGCCGAAAAGGAGCCTGAAAATGGCGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACAACAATACTTATTGGCACAAC
| | | ||| |||| | |||| || | | || || | | || | || | ||| || || | || || | | | |||||||||||||||| |||||||| ||||||||||| || |||||| | |||||||||||||||||||| ||||| ||||| ||||| |||||||||||
gtccccaccttgtttatca--tccattaaaccctgttggttgatggtagtccttttcatgtctaaacaattgatgcttagatttggttttc-tgttccactagGTTCGTGAGTTGGCTGAAAAGGAACCTGAAAATGGTGTTTTCAGAATGCTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAAC
upper sequence: GLYMA14G01920.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G55930.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------ttgcagattttgcacatcagatttattatttactatga-ttaatttagctgattaaagtttgaacctggaattctaatatctgttgatgacaatgtgtaagGTTCGTGAGTTGGCCGAAAAGGAGCCTGAAAATGGCGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACAACAATACTTATTGGCACAAC
||| || || | | | | | || || | || | || | | || || || | | || |||| ||| | |||| || |||||||| ||||| ||||||||||||||||| ||||| | ||||| ||||||||||| | || | ||||| ||||||||||| |||||
gtaataaataactcctctcctggattcagtaatgccaatgatgataagctgttctgtttttattcgtatcttcacgctcttgtctcttggatggttctttaaatgtggtag-tgttatgtgttttgtatcagGTGCGCGAGTTGGCTGAAAAAGAGCCTGAAAATGGCGTTTTCAGGATGCTCCGCAGTGATGTTACCAGATTTTTGACAACCATACTTATTGGAACAAC
upper sequence: GLYMA14G01920.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 1
ttgcagattttgcacatcagatttattatttactatgattaatttagctgattaaagtttgaacct----ggaattcta-----atatctgttgatgacaatgtgta--agGTTCGTGAGTTGGCCGAAAAGGAGCCTGAAAATGGCGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACAACAATACTTATTGGCACAAC
|| ||| |||| || || || || | || | || ||| ||||| | ||| | | | |||||| | | || |||| |||||||| || ||||||||| |||| ||||| ||||||| | | ||||| |||||||||||||| ||| | || || |||||||| ||||||||
--------cttatgtatctag---attacttttcttgtttcatctccctagtaaatgttctaacctattggagattttgtgattgtgttggttgatattgttttatatcagGTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agctgattaaagtttgaacctggaattctaatatctgttgatgacaatgtgtaagGTTCGTGAGTTGGCCGAAAAGGAGCCTGAAAATGGCGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACAACAATACTTATTGGCACAAC
aattctaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcagattttgcacatcagatttattatttactatgattaatttagctgattaaagtttgaacctggaattctaatatctgttgatgacaatgtgtaagGTTCGTGAGTTGGCCGAAAAGGAGCCTGAAAATGGCGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACAACAATACTTATTGGCACAAC
- - - - - - cacatca
- - - - - - - - - - - - - - - - - - - - - - - gctgatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgac