Sequence
atgc intronic sequence ATGC exonic sequence...aaagcttaagctgttaggtgaaaacacatgactggctttatattacttctctaacaataattgtgattttaagttagatttaatcctaactgtgatgcagGTATGAGGATGCTTTTAATAGATTTATTGATGAAATCAACTCGGTTGCTGCATATGATTGGTGGGAGGGATCAGTGCACAGTATACTTTCAGTTGTTGCA
Basic information
species | Glycine max |
transcript | GLYMA11G04290.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G04290.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os04g10380.1 (Oryza sativa), 3'ss of exon 15
aaagcttaagctgttaggtgaaaacacatgactggctttatattacttctctaacaataattgtgattttaagttagatttaatcctaactgtgatgc-agGTATGAGGATGCTTTTAATAGATTTATTGATGAAATCAACTCGGTTGCTGCATATGATTGGTGGGAGGGATCAGTGCACAGTATACTTTCAGTTGTTGCA
|| | | | | | ||| | | || | | | | || | | || || | || | | | | ||| || ||||| ||||||||||| | ||||| ||||| ||||| | ||| |||||||| || |||||||| ||||| | || |||||||||||||| |||||
-aactatgtcatatatatttccgaagaatgttcatgtctccatcagtattttgtttgtattccttgccataggtgatatcttgttactttttttttgccagATATGAAGATGCTTTTAACCGTTTTATCGATGAGATCAATTTGGTGGCTGCATACGAGTGGTGGGAAGGATCTATACATAGTATACTTTCAGTACTTGCA
upper sequence: GLYMA11G04290.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G015291_T01 (Zea mays), 3'ss of exon 7
--aaagcttaagctgttaggtgaaaacacatgactggctttatattacttctctaacaataattgtgattttaagttagatttaatcctaactgtgatgcagGTATGAGGATGCTTTTAATAGATTTATTGATGAAATCAACTCGGTTGCTGCATATGATTGGTGGGAGGGATCAGTGCACAGTATACTTTCAGTTGTTGCA
| ||| || | | | | | | | | | | |||| | | || | | | | | ||| ||||| |||||||| || | ||||||||||| ||||| | ||| ||||||||||| |||||||| ||||| | || ||||||||||| ||| ||||
atctattctaacttgaggaaatgatttattttcccaagtacagaatgacttgtgagaaatacagaaacatcagaactaagctctgtttttttcct--ttcagTTATGAAGATGCTTTCAACCGTTTTATTGATGAGATCAATTTGGTGGCTGCATATGAGTGGTGGGAAGGATCTATACATAGTATACTTTCTGTTCTTGCG
upper sequence: GLYMA11G04290.1 (Glycine max), 3'ss of exon 15
lower sequence: AT5G47020.1 (Arabidopsis thaliana), 3'ss of exon 16
--aaagcttaagctgttaggtgaa-aacacatgactggctttatattacttctctaacaataattgtgattttaagttagatttaatcctaactgtgatgcagGTATGAGGATGCTTTTAATAGATTTATTGATGAAATCAACTCGGTTGCTGCATATGATTGGTGGGAGGGATCAGTGCACAGTATACTTTCAGTTGTTGCA
|||| || || | | | || | | | || | | | | ||| ||| | | ||| | | | | ||| ||||||| || ||||||||||| || |||||| ||||||| ||||| || ||||||||||||||||| || || |||||||| || ||||||||| |||||
cgttttcttatactctttgcttatcaatgtgacatcgtcctttggctcactttattccaaggcatgtccactca---tagttctggacatttctgattcgcagGTACGAAGATGCTTTTAACAGCTTTATTAATGAAATAAACTCTACCGCAGCATATGATTGGTGGGAAGGGTCTGTGCACAGCATTCTTTCAGTTCTTGCA
upper sequence: GLYMA11G04290.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 15
---aaagcttaagctgttaggtgaaaacacatgactggctttatattacttctctaacaataattgtgattttaagttagatttaatcctaactgtgatgcagGTATGAGGATGCTTTTAATAGATTTATTGATGAAATCAACTCGGTTGCTGCATATGATTGGTGGGAGGGATCAGTGCACAGTATACTTTCAGTTGTTGCA
|||| || | || | ||| | | | | || | | || | | || || ||| | | ||| | || | ||||||||| ||||||||||| ||||| |||||||| || || || ||||||||||||||||||||||| || ||||| ||||| ||||||||||| |||||
ttagaagcctattgtattggaagaacatattagcatcaggttgtgccatctcatgattcaaaaaaatgttttctaat---attctgactattttgatctacagGTATGAAGATGCTTTTAACAGATTCATTGATGAGATTAATTCAGTTGCTGCATATGATTGGTGGGAAGGGTCAGTACACAGCATACTTTCAGTGCTTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttctctaacaataattgtgattttaagttagatttaatcctaactgtgatgcagGTATGAGGATGCTTTTAATAGATTTATTGATGAAATCAACTCGGTTGCTGCATATGATTGGTGGGAGGGATCAGTGCACAGTATACTTTCAGTTGTTGCA
tcctaac putative branch site (score: 1)
aataattgtgatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagcttaagctgttaggtgaaaacacatgactggctttatattacttctctaacaataattgtgattttaagttagatttaatcctaactgtgatgcagGTATGAGGATGCTTTTAATAGATTTATTGATGAAATCAACTCGGTTGCTGCATATGATTGGTGGGAGGGATCAGTGCACAGTATACTTTCAGTTGTTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - -gctgtta
- - - - - - - - - - - aacacat
- - - - - - - - - - - - - - - -ctggctt