Sequence
atgc intronic sequence ATGC exonic sequence...aatctcttggtttcccaatttgctggatccttctactttgactgaaattggcatgtttgtccaatttaattatcttctaacttgaccaaaatcttgtcagTATGGAGGAGCAAGTAATTAGTCGTGCTCATCGAATGGGTGCTTCTCGTCCTATTCATGTGGAAACATTAGCAATGCGTGGTACAATTGAAGAGCAAATG
Basic information
species | Glycine max |
transcript | GLYMA04G28970.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G28970.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g72310.1 (Oryza sativa), 3'ss of exon 6
---------------aat--ctcttggtttcccaatttgctggatccttctactttgactgaaattggcatgtttgtccaattta--attatcttctaacttgaccaa--aatcttgtcagTATGGAGGAGCAAGTAATTAGTCGTGCTCATCGAATGGGTGCTTCTCGTCCTATTCATGTGGAAACATTAGCAATGCGTGGTACAATTGAAGAGCAAATG
||| ||||| | || || | | | | | | ||| | ||| | ||| | | | | ||||| | || || | ||||||||||||||||||| ||||||||||| ||||| ||||||||| ||||||| || ||| || || || || ||||||||||| || ||||||||||||
gtaatcttactctctaattgctcttcgattgccgaaataacttgtgacatcatctcgctatcaatgtgtgccattgactcattcacgaatgtgttctatttcccccttttcatttgatcagTATGGAGGAGCAAGTTATTAGTCGTGCACATCGTATGGGTGCTACTCGTCCCATATTTGTTGAGACTTTGGCCATGCGTGGTACCATCGAAGAGCAAATG
upper sequence: GLYMA04G28970.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G167668_T01 (Zea mays), 3'ss of exon 1
--aatctcttggtttcccaatttgctggatccttctactttgactgaaattggcatgtttgtccaatttaattatcttctaacttgaccaaaatcttgtcagTATGGAGGAGCAAGTAATTAGTCGTGCTCATCGAATGGGTGCTTCTCGTCCTATTCATGTGGAAACATTAGCAATGCGTGGTACAATTGAAGAGCAAATG
| | | || | | | | | | | |||| ||| ||||| | | | | | | || |||| | ||||||||||||| || || |||||||| || ||||||||||| ||| | ||||| || ||||| ||||| || || ||||||||||| |||||||||||||||
ggcagttggtagtcaacacttctaacaagattatttgttatcactgtcattatcatgtatcatctgtg-actgacactcgcactttgtttgt-tacgatcagTATGGAGGAACAGGTTATTAGTCGGGCACATCGAATGGGGGCTACGCGTCCAATACATGTAGAAACTTTGGCTATGCGTGGTACCATTGAAGAGCAAATG
upper sequence: GLYMA04G28970.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 7
aatctcttggtttcccaatttgctggatccttctactttgactgaaattggcatgtttgtccaatttaatt-atcttctaacttgaccaaaat--cttgtcagTATGGAGGAGCAAGTAATTAGTCGTGCTCATCGAATGGGTGCTTCTCGTCCTATTCATGTGGAAACATTAGCAATGCGTGGTACAATTGAAGAGCAAATG
| || | | | ||||| || || | ||| | | |||||| ||| | | | || || | || || | | ||| ||| ||||| || ||||| || |||||||| || || ||||||||| |||| ||||||| ||||||||| |||||||||||||||||||| ||||||||||||
-ctacctgtgctgcaaaatttatatgacatttagagtttcctt--agttggcacatttttactttcaaagagatttactggttttattggtttaacttaccagCATGGAAGAACAAGTGATCAGTCGTGCCCACCGGATGGGTGCTACTCGGCCTATTCGTGTGGAAACTTTAGCAATGCGTGGTACAATCGAAGAGCAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattggcatgtttgtccaatttaattatcttctaacttgaccaaaatcttgtcagTATGGAGGAGCAAGTAATTAGTCGTGCTCATCGAATGGGTGCTTCTCGTCCTATTCATGTGGAAACATTAGCAATGCGTGGTACAATTGAAGAGCAAATG
tcttgtc CT-rich tract
aatttaattatcttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatctcttggtttcccaatttgctggatccttctactttgactgaaattggcatgtttgtccaatttaattatcttctaacttgaccaaaatcttgtcagTATGGAGGAGCAAGTAATTAGTCGTGCTCATCGAATGGGTGCTTCTCGTCCTATTCATGTGGAAACATTAGCAATGCGTGGTACAATTGAAGAGCAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA