Sequence
atgc intronic sequence ATGC exonic sequence...agataactacaaattcctgtataggagacaaatagatttcacatttagcttgtccatttgaactaaacattgactggtatcattatggttcaggaaccagTCCAAAACTTGGTGACAAGACAATTTATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCCGGCAAACTTGATGCT
Basic information
species | Glycine max |
transcript | GLYMA16G25990.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G25990.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g40190.1 (Oryza sativa), 3'ss of exon 5
--------------------------------------------------------------------------------agataactacaaattcctg--tatag-gagacaaatagatttcacatttagcttgtccatttgaactaaacattgactggtatcattatggttcaggaaccagT---CCAAAACTTGGTGACAAGACAATT---TATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCCGGCAAACTTGATGCT
|| | | ||| | || | ||| || ||| ||||| | | | ||| || | ||| | ||| | | | | || | | |||| || ||| | ||| || | | | | | || | |||| || | ||||||||||||||||||||| |||| ||| |||||| ||
gtatgacagtcgtattattatgttcttttggctatccaccttaattctttgctgcataaattcacatatttatatcagcaggagacttgcaattgtttgattttagtgaaacatatagactgctagcct--cttccacagaccatctaga-atttatttttgtgtttcttttgcagGCCATTGTGAACCAGAGCTTTGTAATGACATTACTGAGTACTATATTGCTCCACGCCTGAAAGCATTCTCTGATTGGATTCTAAAAGCTATGGCCATAGG-------------
upper sequence: GLYMA16G25990.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0255g00100.t01 (Vitis vinifera), 3'ss of exon 6
-----------------------------------agataactacaaattcctgtataggagacaa-atagat-ttcacatttagcttgtccatt-tgaactaaacattgactggtatcattatggtt------caggaa---ccagTCCAAAACTTGGTGACAAGACAATTTATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCCGGCAAACTTGATGCT
| ||| ||| || || | | ||| | || | || || | | || | | | || | | | | | || ||||| |||| | | | || || |||||| ||||| ||||| ||||| ||||| ||||||| ||||| ||||||||||| ||||||||||| | || ||
gtatttattctttagtccagaatttattatggcaaaaatatctagggcttactcttgctgtgactatattgccattggtatgttgtttataaaatgtgcataatgtgtctgaggagagt-ttctggttaaccaacagGGAATACTGATGATGAAAATGATGACAAAACAATCTATTCTATTGGAACAAGGTTGAAAGCGTTCTCCGATTGGCTTCTCAAAACTATGGTGGCAGGTAA---------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagcttgtccatttgaactaaacattgactggtatcattatggttcaggaaccagTCCAAAACTTGGTGACAAGACAATTTATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCCGGCAAACTTGATGCT
tatcattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agataactacaaattcctgtataggagacaaatagatttcacatttagcttgtccatttgaactaaacattgactggtatcattatggttcaggaaccagTCCAAAACTTGGTGACAAGACAATTTATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCCGGCAAACTTGATGCT
- - - - - - - tcctgta
- - - - - - - - - - - - gagacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgactg