Sequence
atgc intronic sequence ATGC exonic sequence...atttggtgggagctttttgcattgggttgccttttgatgtctcttggtccactactcttaacaaatacaatctaaaaatctgcattacttgaattttcagATTTGTGTTATTTGCAAGCAAATTCATGGTTCGTGTACACAATGTTGCAAGTGTTCTACTTATTTCCATGCCATGTGTGCTTCAAGGGCTGGTTATCGAA
Basic information
species | Glycine max |
transcript | GLYMA04G41500.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os01g46700.1 (Oryza sativa), 3'ss of exon 13
--------atttggtgg------gagctttttgcattgggttgcctt--------ttgatgtctcttggtccactactcttaacaaatacaatctaaaaatctgcatt---acttgaattttcagATTTGTGTTATTTGCAAGCAAATTCATGGTTCGTGTACACAATGTTGCAAGTGTTCTACTTATTTCCATGCCATGTGTGCTTCAAGGGCTGGTTATCGAA
||| | || || | || | | ||| || | | ||||| | | ||| | | | ||||| || ||| | | ||||| ||||| ||||| | |||||| ||||||||||||||||| || | || ||| || ||||||| ||||||||| ||||| |||||||| || ||| | |
gtagtataattggatgatatattaagtgtcttaagaagattaatcttgaacaatattaaaatgtcttgtatattgaagttgaactacaaaactctaattatgcttattctcatccattgctccagATGTGTGTCATTTGTAGGCAAATACATGGTTCGTGTACACAGTGCTACAGGTGCTCAACTTATTACCATGCCATCTGTGCATCAAGGGCAGGCTATAGGA
upper sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 14
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 13
-----------------------------------att-tggtgg-gagctttttgcattgggttgccttttgatg-tctcttgg-----tccactactcttaacaaatacaatctaaaaatctg--cattacttgaat---tttcagATTTGTGTTATTTGCAAGCAAATTCATGGTTCGTGTACACAATGTTGCAAGTGTTCTACTTATTTCCATGCCATGTGTGCTTCAAGGGCTGGTTATCGAA
|| || | || || | | ||| | | || | || |||| | ||||| || | | || | | ||| || | | || || || ||||||||||| || ||||||||||| ||||| || || || || ||||||||||| ||||| |||| ||||||||||||||||| | ||||| ||| |||
gtacatacctgattcctggatatcatattcggcctatcgtgataataagattagctcctgcagttacttgtttctaaccttttgggaagtttcactatgtgcaaaactaaaaagccagaaaccttatcctgtttttgatatattccagATTTGTGTAATATGCAAGCAAATACATGGCTCATGCACTCAGTGTTGCAAGTGCTCTACGTATTATCATGCCATGTGTGCTTCCCGAGCTGGGTATAGAA
upper sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 14
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 13
----atttggtgggagctttttgcattgggtt----gccttttgatgtctcttggtccactactcttaacaaatacaatctaaaaatctgcattacttgaattttcagATTTGTGTTATTTGCAAGCAAATTCATGGTTCGTGTACACAATGTTGCAAGTGTTCTACTTATTTCCATGCCATGTGTGCTTCAAGGGCTGGTTATCGAA
|||| | | ||| ||| || || ||||| || || ||| | || |||| || || ||| | || |||||||| ||||| || ||||| ||||| ||||| |||||||| || ||||||||||||||||| || | |||||||||||||| || | ||||||||| |||
gtaaatttaatattaacttattgtctttaattttggacctttccataact----gtctgcgaccaaagctaaattgcatgaaatcttcttcgttttgatggatttcagATATGTGTAATATGCAAACAAATACATGGCTCGTGTACTCAGTGTTGCAAGTGTTCTACATACTATCATGCCATGTGTGCCTCCCGAGCTGGTTATAGAA
upper sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 14
atttggtgggagctttttgcattgggttgccttttgat---gtctcttggtccactactctt-aacaaatacaatctaaaaatctgcattacttgaatt---ttcagATTTGTGTTATTTGCAAGCAAATTCATGGTTCGTGTACACAATGTTGCAAGTGTTCTACTTATTTCCATGCCATGTGTGCTTCAAGGGCTGGTTATCGAA
| | | | || |||| ||| | |||| || | | | || | |||| | | || |||| | | ||| || || || |||||||||| || || || |||||||| |||||||| || ||||| |||||||||||||||||||| | |||||| |||||||| |||||||| || ||||| |
-----tttgaaaatgttagcatgatgtttaatattgagttggttttcttgcacatgaatcttcagctgatgtgatctgag--tttgccttgttttcatgaaattcagATTTGCGTAATCTGTAAGCAAATACATGGTTCATGCACACAGTGTTGCAAGTGTTCTACTTACTACCATGCAATGTGTGCATCAAGGGCGGGGTATCGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtccactactcttaacaaatacaatctaaaaatctgcattacttgaattttcagATTTGTGTTATTTGCAAGCAAATTCATGGTTCGTGTACACAATGTTGCAAGTGTTCTACTTATTTCCATGCCATGTGTGCTTCAAGGGCTGGTTATCGAA
ttttc CT-rich tract
ttaacaaatacaatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttggtgggagctttttgcattgggttgccttttgatgtctcttggtccactactcttaacaaatacaatctaaaaatctgcattacttgaattttcagATTTGTGTTATTTGCAAGCAAATTCATGGTTCGTGTACACAATGTTGCAAGTGTTCTACTTATTTCCATGCCATGTGTGCTTCAAGGGCTGGTTATCGAA
- -tggtggg
- - - - - - - ttttgca
- - - - - - - - - - - tgggttg
- - - - - - - - - - - - - - - - - tgatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcattac