Sequence
atgc intronic sequence ATGC exonic sequencegtaatatgatctttcaagagacctttttgagttatggccttctccctttctaatttacacatagactgtagataatacttaattggttttagtgattgatttgtctagattatactaatgttgcgaacttccaactttggattgtcttgccatgcagTTACCAGCTCTTATTCGTCCTGGTATAACATTAGTAATTTCTCCCCTTGTGTCCCTTATTCAAGATCAAATAATGCACCTATTGCAG
Basic information
species | Glycine max |
transcript | GLYMA08G20070.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20070.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G10930.1 (Arabidopsis thaliana), 3'ss of exon 9
-----gtaatatgatctttcaagagacctttttgagttatggccttctccc--tttctaatttacacatagac-tgtagataatacttaattggttttagtgattgatttgtctagattatactaatgttgcgaacttccaactttggattgtcttgccatgcagTTACCAGCTCTTATTCGTCCTGGTATAACATTAGTAATTTCTCCCCTTGTGTCCCTTATTCAAGATCAAATAATGCACCTATTGCAG
| | | | | | | ||| || | | | || | ||| ||| ||| | | ||||| || || | ||| | || | |||| | | | ||| ||| | || ||| |||| | || ||||| || || || |||||||||||||||||||| |||||||| ||||||||||| || |||||| |||||||||||
gtcactagacttaaacctgtacattataatttcactttgattcttcaatctaattcttgtttttcactgagatatttgtataatcctacatcaaaaatgatgaaagtttc----aagttattttctcgaaactgttttctaacatc---tttctttg----gcagCTCCCCGCTCTGATCTGTGGAGGAATAACATTAGTAATTTCTCCACTTGTGTCTCTTATTCAAGACCAGATAATGAACCTATTGCAG
upper sequence: GLYMA08G20070.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G60930.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaatatgatctttcaagagacctttttgagttatggccttctccctttctaatttacacatagactgtaga-taatacttaattggttttagtgattgatttgtctagattatactaatgttgcgaacttccaa-----ctttggattgtcttg--ccatgcagTTACCAGCTCTTATTCGTCCTGGTATAACATTAGTAATTTCTCCCCTTGTGTCCCTTATTCAAGATCAAATAATGCACCTATTGCAG
||| || || || | | | | | | | || | || || || | || || || ||| | | |||| | ||||| | || ||||| | || | || ||||||||||| |||||||| ||||| || || |||||||| || |||||| || ||||||||
----------------------------------------------------------------actataagctagtattctgtccttgtggaggttatacttcagaaagttgctctg-cgtctaggacatcaaaaacgtcttcataatatctttttctctgcagCTCCCTGCTCTACTCTGTGCAGGAATAACATTAGTCATTTCTCCACTTGTTTCACTCATTCAAGACCAGATAATGAACTTATTGCAG
upper sequence: GLYMA08G20070.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv12s0035g00400.t01 (Vitis vinifera), 3'ss of exon 5
gtaatatgatctttcaagagacctttttgagttatggccttctccctttctaatttacacatagactgtagataatacttaattggttttagtgattgatttgtctagattatactaatgttgcgaacttccaactttggattgtcttgccatgcagTTACCAGCTCTTATTCGTCCTGGTATAACATTAGTAATTTCTCCCCTTGTGTCCCTTATTCAAGATCAAATAATGCACCTATTGCAG
| || | | || |||| | | || | | | || ||| | | ||| | || || | ||| || ||| || | || | ||| | || ||||||||| ||| || || || | ||||||||||| ||||| || || |||||||||||||||||||| |||||||||
-----------------------------------------------------tctaggagttggt--taatcaataatgcaatgaactgaaggttttttttattactcctgtacaagtgatg--atcttacacattttagttctgttatatttcagCTGCCTGCTCTTATTTCTCCAGGGATTACCCTGGTAATTTCTCCTCTTGTCTCACTAATTCAAGATCAAATAATGCATCTATTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctagattatactaatgttgcgaacttccaactttggattgtcttgccatgcagTTACCAGCTCTTATTCGTCCTGGTATAACATTAGTAATTTCTCCCCTTGTGTCCCTTATTCAAGATCAAATAATGCACCTATTGCAG
tactaat putative branch site (score: 1)
ttgtctt putative PPT
attatactaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatgatctttcaagagacctttttgagttatggccttctccctttctaatttacacatagactgtagataatacttaattggttttagtgattgatttgtctagattatactaatgttgcgaacttccaactttggattgtcttgccatgcagTTACCAGCTCTTATTCGTCCTGGTATAACATTAGTAATTTCTCCCCTTGTGTCCCTTATTCAAGATCAAATAATGCACCTATTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA