Sequence
atgc intronic sequence ATGC exonic sequencegtaatttttcctttacatatttcttgcatttaaaatatgctttttagatttttagtttttatccttttaatatcatgctgaactctgaactgtggaatgtacagAGTGTCGAAGATCTTGTCATAAGGGGTTTCAATTACTGTATCATTGATGAGGTTGATTCAATCCTTATTGATGAAGCTAGAACGCCGCTTATTATATCAG
Basic information
species | Glycine max |
transcript | GLYMA10G27810.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 4
----gtaatttttcctttacatatttcttgcatttaaaatatgctttttagatttttagtttttatccttttaatatcatgctgaactctgaactgtggaatgtacagAGTGTCGAAGATCTTGTCATAAGGGGTTTCAATTACTGTATCATTGATGAGGTTGATTCAATCCTTATTGATGAAGCTAGAACGCCGCTTATTATATCAG
|||||| || ||||| | | ||| |||| || || || |||| ||| || |||| |||| | | | || |||||||||||| || || || ||| | |||| ||||||||| ||| | |||||||| |||||||| || |||||||||||||| || || || || ||||| || |
gaaagtaattcttgctttattttctcctttcatt------attgattgtatgagtttattttggatgttttt--------tctgagtt---agtttctgattgtacagAGTGTTGAGGAGCTCGTCTTGAGGGATTTCAATTATTGTGTGATTGATGAAGTTGATTCCATACTTATTGATGAAGCAAGGACTCCTCTCATTATCTCTG
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G01800.2 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------gtaatttttcctttaca--tatttcttgcatttaaaatatgctttttagatttttagtttttatccttttaatatcatgctgaactctgaactgtggaatgtacagAGTGTCGAAGATCTTGTCATAAGGGGTTTCAATTACTGTATCATTGATGAGGTTGATTCAATCCTTATTGATGAAGCTAGAACGCCGCTTATTATATCAG
||| | || | || ||||||| |||| | | |||| ||| | || | | ||| || | | | | | || |||||||||||| || || || ||| | |||| ||||||||| ||| | |||||||| |||||||| || |||||||||||||| || || || || ||||| || |
gtcaccaacagtgagcttggatttgattatctgagagacaatctagccacggaaagtaattcttgc-tttattttctcctttcattattgattgtatgagtttattttggatgttttttctgagttagtttctgattgtacagAGTGTTGAGGAGCTCGTCTTGAGGGATTTCAATTATTGTGTGATTGATGAAGTTGATTCCATACTTATTGATGAAGCAAGGACTCCTCTCATTATCTCTG
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 5
gtaatttttcctttacatatttcttgcatttaaaatatgctttttagatttttagtttttatccttttaatatcatgctgaactctgaactgtggaatgtacagAGTGTCGAAGATCTTGTCATAAGG---GGTTTCAATTACTGTATCATTGATGAGGTTGATTCAATCCTTATTGATGAAGCTAGAACGCCGCTTATTATATCAG
|||| || | | ||| | | | || || || | || |||| ||| | | | | | | || || | || || | || | |||| || || | ||| | | || ||| ||| | | |
---------------------gcttgtcttgagg----ggtttcaattactgtgtaattgatgaggttgactcaattctgattgacgaagCAAGAACTCCTCTCATTATCTCAGGACCTGCTGAAAAGCCAAGTGATAGGTACTATAAAGCTGCAAAAATTGCCTTGGCCTTTG-------AGCGAGATCTGCATTA---------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttagtttttatccttttaatatcatgctgaactctgaactgtggaatgtacagAGTGTCGAAGATCTTGTCATAAGGGGTTTCAATTACTGTATCATTGATGAGGTTGATTCAATCCTTATTGATGAAGCTAGAACGCCGCTTATTATATCAG
ttttaat putative branch site (score: 3)
tttttatccttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttttcctttacatatttcttgcatttaaaatatgctttttagatttttagtttttatccttttaatatcatgctgaactctgaactgtggaatgtacagAGTGTCGAAGATCTTGTCATAAGGGGTTTCAATTACTGTATCATTGATGAGGTTGATTCAATCCTTATTGATGAAGCTAGAACGCCGCTTATTATATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC