Sequence
atgc intronic sequence ATGC exonic sequence...actggtcatatgtttaaatctttctttattgaaggtgattggtttcaaaataattatgatgctagctgaactgtgacatttttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
Basic information
species | Glycine max |
transcript | GLYMA10G42560.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os10g36490.1 (Oryza sativa), 3'ss of exon 9
---actggtc-atatgtttaaatctttctttattgaaggtgattggtttcaaaataattatgatgctagctgaactgtgacatttttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
| | || || | | || || | || | || || | | || | ||| | | || || | || | || | | | ||| | |||||| ||| | || |||||||||| ||||| || ||||| |||||||| || || |||||||||||||||||| | |||||||| |||||
gtaagagatccatttatctagattatctcttgt--aatactttttatct-gaattgtttaccctataaactcctttgcatgggtgttca--ttattct--atagACATGCAGAAAGCTCTGTCAGGAATTGTTCCTGCAATTGAAAAGGCACGCCTTTATCGAGGTAAAGGAGGAGAGATAATGCGTTCTGCTGTTTCCCGATT
upper sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G60740.1 (Arabidopsis thaliana), 3'ss of exon 10
------------------------------------------------------------------------------------actggtcatatgtttaaatctttcttta--ttgaaggtgattgg--tttcaaaataattatgatgctagctgaactgtgacattt---ttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
| | | || ||| | | | || | | | ||| | | || | | || | | | | || ||| | | || ||||||| || || || | |||||| |||||||| | |||||||||||||| ||||| |||||||| || ||||| |||||||| ||||| || |||||
gttagtaccatctattttttcagctttggcttttgtggcacctttgcatatggaaagtcaaaaatatgggcaccatcttggaatctagactttgtaagcggatttttaatcagatgaaaaattaacagagtttgatggttggcatcgttatcccttatatttaaggttcatgttgcactcaatttttacagATAGCCAAAAGCGTATGGCTGGTATTGTTCCTTCCATTGAGAAAGCACGCCTTTACCGTGGAAAAGGTGGAGAAATAATGCGACTGGCTGTCTCACGATT
upper sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 10
actggtcatatgtttaaatctttctttattgaa-ggtgattggtttcaaaataattatgatgctagctgaactgtgacatttttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
|| | | ||| || | |||| | | | | | || || || ||| | || | ||| | | | | | | ||||||| |||| ||| ||| |||| | ||| ||||||||||||||||||| ||||||||||| ||||| ||||||||||||||||| |||||||| || ||
tgtgtctctgcttctaactcaaaagtaattggttgataaattgctttcaagcttctaatttgcaaactaactcatgat-cctgagcatatatttcttccagATAAGCAGACAAGGTTTGTTGGTATAGTTACTGCTATTGAGAAAGCACGCCTTTATCGTGGGAAGGGTGGAGAGATAATGCGTGCTGCTGTTTCCCGGTT
upper sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ25897 (Selaginella moellendorffii), 3'ss of exon 11
actggtcatatgtttaaatctttctttattgaaggtgattggtttcaaaataattatgatgctagctgaactgtgacatttttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
|| || | ||| || | | | |||| | | || || | |||| || | || | || ||| | || || || ||||||||||| || || ||||||||||||||||| || || |||||||| |||||||| | |
-------------------------------------------------gtactttttgtgcaagtttg-cagctgcattgctaatatcatc--taccagAGAAGGAAAAGCTCGTAGCCGGTATGGTACCAGCCATTGAGAAAGCTCGACTATATCGTGGAAAGGGAGGGGAAATCATGCGTGCCGCTGTTTCGAGGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaaataattatgatgctagctgaactgtgacatttttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
acatttttgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actggtcatatgtttaaatctttctttattgaaggtgattggtttcaaaataattatgatgctagctgaactgtgacatttttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - catatgt
- - - - - - - - - - - - - - - - - gtgattg
- - - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aactgtg