Sequence
atgc intronic sequence ATGC exonic sequence...ataaagtggaaactgggaagcatggcttttttgttgtttgtttttctattggttttataattgaccttcaatgattgtcatgtttctgcctttttctcagGTTGTCAAGCGGTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAACTTGCTGCAGAATCTCCACAAGGAATTCTTCGAACTCCTGACA
Basic information
| species | Glycine max |
| transcript | GLYMA14G37510.1 |
| intron # | 9 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 10
--------------------------------ataaagtggaaactgggaagcatggcttttttgt-tgtttgtttttctattggttttataattgaccttca---atgattgtcatgtttctgcctttttct-cagGTTGTCAAGCGGTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAACTTGCTGCAGAATCTCCACAAGGAATTCTTCGAACTCCTGACA
|| || || || | | | | || | || | ||||| | ||| | ||| || | | ||||| | | || || || | | |||||||| | ||||||||||||| ||||| || || || || |||||||| || || | |||||||||||||| ||||| |||| ||||||||||| |
gtaagttccattacttctatgcttttgttgtgatgctgttacaattgcaatttacgcttgttacctatgctggttttatcagtggcat-atattttcctgcaagatatgatagcgagtttaatgttttatattgcagGTTGTGCAAAGGTTTCAAGAATTGTTTGCACAAACAAAATACAAGGAAGCAGCTGAGTTGGCTGCAGAATCTCCTCAAGGTCTTCTCCGAACTCCTGATA
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 10
--------------------------------ataaagtggaaactgggaagcatggcttttttgt-tgtttgtttttctattggttttataattgaccttca---atgattgtcatgtttctgcctttttct-cagGTTGTCAAGCGGTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAACTTGCTGCAGAATCTCCACAAGGAATTCTTCGAACTCCTGACA
|| || || | | | | | || | || | ||||| | ||| | ||| || | | ||||| | | || ||| || | | |||||||| | ||||||||||||| ||||| || || || || |||||||| || || | |||||||||||||| ||||| |||| ||||||||||| |
gtaagttccattacttctatgcttttgttgtgatgctgttacaatcgcaatttacgcttgttacctatgctggttttatcagtggcat-atattttcctgcaagatatgatagcgagtttaatgctttatattgcagGTTGTGCAAAGGTTTCAAGAATTGTTTGCACAAACAAAATACAAGGAAGCAGCTGAGTTGGCTGCAGAATCTCCTCAAGGTCTTCTCCGAACTCCTGAGA
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 10
---ataaagtgga---aactgggaagcatggcttttttgttgtttgtttttctattggttttataattgaccttcaatgattgtcatgtttctgcctttttctcagGTTGTCAAGCGGTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAACTTGCTGCAGAATCTCCACAAGGAATTCTTCGAACTCCTGACA
| || | | | | | | | | || | ||| || |||| ||| | |||| | | ||| || | || | |||||||||||||| ||||||| |||||| | ||||||||||| ||||||||||||||||| || |||||||||||||||||||| ||| | || || |||||||| |
tttacaattttggtccattttctaggaaggcctctagaattgcagtgagtttcattg--catattaaaaacctgc--tcatt--tgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S7_102V6.1 (Physcomitrella patens), 3'ss of exon 10
-----ataaagtggaaactggga-agcatggcttttttgttgtttgtttttctattggttttataattgaccttcaatgattgtcatgtttctgcctttttctcagGTTGTCAAGCGGTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAACTTGCTGCAGAATCTCCACAAGGAATTCTTCGAACTCCTGACA
|| || | || | || || | | | | | || || | | || || | || | | || | || ||||||||| | || ||||||||||| || | |||| ||||| ||||| || ||||| ||||||||||| || || || || ||||||||||||||||| |
gtcatatcgtgttgtaatttacctagtataagtggtgagc-gaaaaagtccttactgac---acacgagatctcatttttcggtaacggtt--acattggaatcagGTTGTACAACGTTTTCAAGAATTGTTCTCCCAGATGAAGTACAAGGAGGCAGCAGATCTTGCTGCAGAGTCGCCTCAGGGCATTCTTCGAACTCCTGATA
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S147_10V6.1 (Physcomitrella patens), 3'ss of exon 10
--ataaagtggaaactgggaagcatggcttttttgttgtttgtttttctattggttttata-attgaccttcaatgattgtcatgtttctgcctttttctcagGTTGTCAAGCGGTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAACTTGCTGCAGAATCTCCACAAGGAATTCTTCGAACTCCTGACA
| || | | | || | | | || | || ||| | | ||| ||| ||| || | | || |||| |||||||| | || |||||||| ||||| |||||| |||||||||||||| ||||| ||||| || || || || ||||| || ||||||||||| || |
taaccaaacgtataatgattgagttagaggaaaagactattaggaaagt-ctgatttggcacactgaacttattcgatggtaacggtt--accttgaaaccagGTTGTACAACGTTTTCAAGAGTTATTCTCTCAGATGAAGTATAAGGAAGCAGCAGACCTTGCAGCGGAGTCGCCTCAAGGCATCCTTCGAACTCCAGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctattggttttataattgaccttcaatgattgtcatgtttctgcctttttctcagGTTGTCAAGCGGTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAACTTGCTGCAGAATCTCCACAAGGAATTCTTCGAACTCCTGACA
aattgac putative branch site (score: 3)
tcatgtttctgccttt putative PPT
ttttataattga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataaagtggaaactgggaagcatggcttttttgttgtttgtttttctattggttttataattgaccttcaatgattgtcatgtttctgcctttttctcagGTTGTCAAGCGGTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAACTTGCTGCAGAATCTCCACAAGGAATTCTTCGAACTCCTGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - -gcatggc
- - - - - - - - - - - - - - - - -ttgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgcc
