Sequence
atgc intronic sequence ATGC exonic sequence...tttttatatttcagtgaaacgattaaatatggatctacagtgtattactgaccatttttattaacaaaaaagactaatttatacattttttccatgtaagGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
Basic information
species | Glycine max |
transcript | GLYMA18G46760.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g57710.1 (Oryza sativa), 3'ss of exon 9
tttttatatttcagtgaaacgattaaatatggatctacagtgtattactgaccatttttattaacaaaaaagactaatttatacattttttccat----gtaagGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
|| || | | |||| ||| | || | || || | || |||| | | ||||||||| | |||||||| ||||||||||||||||| ||||| |||| |||||||| ||||| ||| |||| || |||||| ||||||||||||||||| |||
-----gtaattattgtgccctgctgcttatg--cttaccatatagtggggagtggggacttttataa-------caattcttgctctttttccatcatgatcagGTCGGATCTGTTCTTCTCAGTTGTTCCTTCTTATATGACATCTTTTGGGTTTTTATCTCCAAGATGTGGTTTCATGAGAGTGTGATGATTGTG
upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g51430.1 (Oryza sativa), 3'ss of exon 9
-------------tttttatatttcagtg---aaacgattaaatatggatctacagtgtattactgaccatttt-tattaacaaaaaagactaatttatac-----attttttccatgta-agGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
| || | ||| | | | | ||| || | | || || || | | | |||||| ||| | | || |||| | | ||||| | |||| || | ||||| ||||| ||||||||| | || ||||||||||||||||||||||| || | ||||| |||||||| |||||||| |||
gtaatctagctgctcttgacttttgactttctacatgat-ggatgttaagctccattgca--agttttcattttactttagcgtggttgttcaagttatctttgtaactgaggccatgaacagGTGGGTTCAGTTCTCCTCAGCTGTGCCTTCTTTTATGACATCTTCTGGGTGTTTGTCTCCAAGAGATGGTTTCATGAGAGCGTGATGATCGTG
upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 7
-tttttatatttcagtgaaacgattaaatatggatctacagtgtattactgaccatttttattaacaaaaaaga-ctaatttatacattttttccat----gtaagGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
| | | | | | | | || | | || | | | || || | ||| || | || | | | | || |||| | | | |||| || | ||||||||| | ||||||||||| || || ||||||||||||||| |||| || | ||||| |||||||| |||||||| |||
gtactcaaaccactcttga-cttttttttgtctttcggctttctcttgct-atggcctttgttgataatatttagttgaggtacgagttttgtttgtcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G096343_T01 (Zea mays), 3'ss of exon 9
tttttatatttcagtgaaacgattaaatatggatctacagtgtattactgaccatttttattaacaaaaaagactaatttatacattttttccatgtaagGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
||| ||| ||| || || | || || | | ||| | | | || ||| |||| || | | || || ||||||||||| |||| |||||||||||||| ||| |||| || || ||||||||| ||||||||||| |||
----------------------gtaactattcttcttgtatgcttttcct-tcagttaagcgattggtactgacacctgttattgcctgttaactgtcagGTGGGTTCAGCCCTCCTGGGTTGTGCCTTCTTATATGACATCTTCTGGGTTTTTATCTCCAAGATGTTGTTCCATGAAAGTGTGATGATTGTG
upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 9
tttttatatttcagtgaaacgattaaatatggatctacagtgtattactgaccatttttatta-acaaaaaagactaatttatacattttttccatgta-agGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
| || | || ||| | || || || | | | | || | | | | | | | | | || | | || | | | ||||||| |||||||||||| ||||||||| | || |||||||||||||| ||||| || ||||||||||||| ||| || |||||||| |||
-gctggtagacggatacaatcatttc-tgccaatgtatagaagaccaatctctataataacaatattagttatgatgactcattgaactcttacgtaaacagGTCGGGTTTGTTCTTCTCAGCTGTGCCTTCATGTATGACATCTTCTGGGTTTTTGTTTCAAAATGGTGGTTCCGTGAAAGCGTGATGATTGTG
upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 9
-tttttatatttcagtgaaacgattaaatatggatctacagtgtattactgaccatttttattaacaaaaaagactaatttatacattttttccatgta-agGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
| | || | | || | | ||| | | ||| | | | || || | | | || | |||| | || | || || || | |||| ||||||||||||||||||||||| ||| | ||||||||||| ||||| ||||| ||||||||||||||| |||||||||||||||| |||
atagaaagatataaatgcagctattcaggtttgatggattattcaaacatgcccttggtgaatacttgacaagatct-ctcattc-ttgttgatataaacagGTTGGAACTGTTCTTCTCAGTTGTGCGTTCTTGTACGACATCTTTTGGGTTTTTGTTTCTAAATGGTGGTTCAATGAGAGTGTGATGATTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactgaccatttttattaacaaaaaagactaatttatacattttttccatgtaagGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
cattttttcc CT-rich tract
atttttattaacaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttatatttcagtgaaacgattaaatatggatctacagtgtattactgaccatttttattaacaaaaaagactaatttatacattttttccatgtaagGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - -ttcagtg
- - - - - - - - - - - - - - - - - -tacagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaaa