Sequence
atgc intronic sequence ATGC exonic sequence...tataaaatgcaggttgtatcttttggccgtatatcatattatttttgtttatctttatgtattatcaaataatgtttgaaaaccgtgaattttactgtagCTTTACAAGATCATGAAGGAGCATAAGAATCCCAAGGTTCTTAGTGAGGGAATTTTGTGGATGGTTTCTGCTGTTGAAGATTTTGGTGTCTCACATATAA
Basic information
species | Glycine max |
transcript | GLYMA10G35140.1 |
intron # | 23 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 23
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 3'ss of exon 21
--------------------------------tataaaatgcagg------ttgtatcttttggccgtatatcatattatttttgtttatctttatgtattatcaaataatgtttgaaaaccgtgaattt---tactgtagCTTTACAAGATCATGAAGGAGCATAAGAATCCCAAGGTTCTTAGTGAGGGAATTTTGTGGATGGTTTCTGCTGTTGAAGATTTTGGTGTCTCACATATAA
| || || | | | || | || | || || ||| | | ||| | | | || | | || ||| ||| || || ||| | | ||||| ||||| || ||||| ||||| || ||||| ||||| ||||| ||||| ||| | |||||||||||||| ||||| || ||||| |||| || |||
gtaagagaaaacactatcggaagtccaaacagttcaatatccgtgaagatcctttagttatttacaataaataatagtttacttgcccttaatcaggtgatgttaagtaactgttgtaatttatgcctttctcttttatagCTATACAAAATAATGAAAGAGCACAAAAATCCAAAGGTGCTTAGCGAGGGTATTCTTTGGATGGTTTCTGCCGTTGAGGACTTTGGGATCTCCAATTTAA
upper sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 23
lower sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 21
---tataaaatgcaggttgtatcttttggccgtatatcatattatttttgttt--atctttatgtattatcaaataatgtttgaaaaccgtgaattttactgtagCTTTACAAGATCATGAAGGAGCATAAGAATCCCAAGGTTCTTAGTGAGGGAATTTTGTGGATGGTTTCTGCTGTTGAAGATTTTGGTGTCTCACATATAA
| | || || || | ||| | || | | | || || | | | |||| || ||| || | | | | | ||||| | ||||||||||| || ||||||||||| |||||||||||||||||||||||||| ||| | |||||||| |||||||| ||||| ||||| |||| || |||
cactgtcgaa--catctttcaattttattctgtgctttaggtgcacgctgcttccaccatgatgt-ttgacaactactatatttatgagttttatttt--tatagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
upper sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 23
lower sequence: GRMZM2G009849_T01 (Zea mays), 3'ss of exon 3
----------------------------------------------------------------------------------------------tataaaatgcaggttgtat-cttttggccgtatatcatattatttttgtttatctttatgtattatcaaataatgtttgaaaaccgtgaatttta---ctgtagCTTTACAAGATCATGAAGGAGCATAAGAATCCCAAGGTTCTTAGTGAGGGAATTTTGTGGATGGTTTCTGCTGTTGAAGATTTTGGTGTCTCACATATAA
| |||| ||| ||| || | | | | | | ||| | ||| | | | ||| | | ||| | | || ||| ||||| ||||||||||||| || ||||||||||| ||||||||||||||||||||||| || ||| | |||||||| |||||||| ||||| ||||| |||| || |||
gtaagagataccattagattattattgtttttgttcaaaaggtcctccacatttgttcaatcaacccaattaggtgattttatatgctggtccgcaataaattcagaatgtgcactgtcgaacatctttgcaattttattttgtgctttagatgcacactgcttatatgatgtataattatgagttttaattttgtagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGATGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
upper sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 23
lower sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 12
---------------------------------------------------------------------------tataaa-atgcaggttgtatct---tttggccgtatat-catattatttttgtttatctttatgtatt--atcaaataatgtttgaaaaccgtgaat--tttactgtagCTTTACAAGATCATGAAGGAGCATAAGAATCCCAAGGTTCTTAGTGAGGGAATTTTGTGGATGGTTTCTGCTGTTGAAGATTTTGGTGTCTCACATATAA
||| || || |||| ||| | | || || |||| | || | | | | | | || ||| | | || ||| | ||||||||||| |||||||| ||||| |||||||| ||||| ||||||||||| || |||||||||||||| || |||||||| |||||||| |||||| | |
gtaagtcaagtttctatcgggcttgaagcttctgtttctctatttggtttgatataaaaacttccttagaattaatatttttatatagattgtgtctatactgaagcatagatatctattggccattgttgtttcagtaatcttgacttggtcatatttttctatggatgatgcttttttatagCTTTACAAAATCATGAAAGAGCACAAGAATCCAAAGGTCCTTAGTGAGGGCATCTTGTGGATGGTTTCAGCAGTTGAAGACTTTGGTGTTTCACATTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttatctttatgtattatcaaataatgtttgaaaaccgtgaattttactgtagCTTTACAAGATCATGAAGGAGCATAAGAATCCCAAGGTTCTTAGTGAGGGAATTTTGTGGATGGTTTCTGCTGTTGAAGATTTTGGTGTCTCACATATAA
ttttact CT-rich tract
tttatgtattatcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataaaatgcaggttgtatcttttggccgtatatcatattatttttgtttatctttatgtattatcaaataatgtttgaaaaccgtgaattttactgtagCTTTACAAGATCATGAAGGAGCATAAGAATCCCAAGGTTCTTAGTGAGGGAATTTTGTGGATGGTTTCTGCTGTTGAAGATTTTGGTGTCTCACATATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - -tgcaggt
- - - - - - - - - -cttttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgtttg