Sequence
atgc intronic sequence ATGC exonic sequence...atatgaattaatctttgattttcaagcttttgtgaatctcaccttaaaattcttgcttgataatgatggttatcgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTACGGAGGGAGGTCAAAATGTTGAAGGCTTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
Basic information
species | Glycine max |
transcript | GLYMA06G13920.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G13920.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os10g36710.1 (Oryza sativa), 3'ss of exon 1
atatgaattaatctttgattttcaagcttttgtgaatctcacctta-aaattcttgcttgataatgatg-gttatcgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTACGGAGGGAGGTCAAAATGTTGAAGGCTTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
| | | | | ||| | | | | || ||| | |||| || || | ||| |||| || | || | | |||||||| ||||||| |||| || ||||| || || ||||| ||||| |||||||||||||||| ||| |||| | ||||| ||||||||||||| ||
-tgcacttggccaaataaaatagaagttctatgggttgtcctattacatattcacatttacctttggaacatgatctcaattttgtgttcctttt-tatcagATGACAACAGCAATATCAATTGAGGATGTGCGTAGAGAGGTGAAAATTCTGAAGGCTTTATCTGGGCATTCGAATCTTGTCAAATTTTATGATGCATGTG
upper sequence: GLYMA06G13920.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G138245_T01 (Zea mays), 3'ss of exon 1
atatgaattaatctttgattttcaagcttttgtgaatctcaccttaaaattcttgcttga--taatgatggttatcgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTACGGAGGGAGGTCAAAATGTTGAAGGCTTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
| || | | ||| | || | ||| | || | | | | || | | ||| || |||| | | ||||||||| ||||||| | || || ||||| || || ||||| ||||| |||||||| |||||||||||| ||| | ||||||||||||||||| | ||
-cacttcctagctcaatgcaccaggggaaaaatatctcttggcctagatttcctattttaatttacaaaagtcacctcaatcctttggttttc-tcttgcagATGACAACAGCAATATCTATTGAGGATGTGCGCAGAGAGGTGAAAATTTTGAAGGCGTTATCTGGACATTCCAATCTTGTCAAGTTTTATGATGCTTGTG
upper sequence: GLYMA06G13920.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G100560_T01 (Zea mays), 3'ss of exon 1
atatgaattaatctttgattttcaagcttttgtgaatctcaccttaaaattcttgcttgataatgatggttatcgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTACGGAGGGAGGTCAAAATGTTGAAGGCTTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
|| | || | | ||| || | || | || | | || | | ||| | ||||| | | ||||||||| | ||||| || || ||||| || | ||||| ||||| |||||||| |||||||||||| ||| | ||||||||||||||||| | ||
ctagcacctagctcactgcaccaggggaaaaatatgtcttgatctagattttatatttagtttgcaaaattcacctcattcctttgtttttctcttgcagATGACAACGGCAATATTTATTGAGGATGTGCGCAAAGAGGTGAAAATTTTGAAGGCGTTATCTGGACATTCCAATCTTGTCAAGTTTTATGATGCTTGTG
upper sequence: GLYMA06G13920.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G378949_T01 (Zea mays), 3'ss of exon 4
atatgaattaatctttgattttcaagcttttgtgaatctcaccttaaaattcttgcttgataatgatggttatcgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTACGGAGGGAGGTCAAAATGTTGAAGGCTTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
|| | || | | |||| || | || | || | | || | | ||| | ||||| | | ||||||||| ||||| | || || ||||| || || ||||| ||||| |||||||| |||||||||||| ||| | ||||||||||||||||| | ||
ctagcacctagctcactgcaccagtggaaaaatatatcttgatctagattttatatttagtttgcaaaattcacctcattcctttgtttttctcttgcagATGACAATGGCAATATCTATTGAGGATGTGCGCAGAGAGGTGAAAATTTTGAAGGCGTTATCTGGACATTCCAATCTTGTCAAGTTTTATGATGCTTGTG
upper sequence: GLYMA06G13920.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 1
atatgaattaatctttgattttcaagcttttgtgaatctcaccttaaaattcttgcttgataatgatggttatcg-taattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTACGGAGGGAGGTCAAAATGTTGAAGGCTTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
| | || ||| ||| | | | | || | ||| | | | | || ||| | ||| ||| | | | || | ||||||||||| ||||||| || || |||||||| || |||||||| ||||| || || ||||| |||| ||||||||||||||||| ||| | ||||||| ||
-tttttctttttctgtgactgcatcataaaagcaattaattgttttactaagttggtgggtgggggtgagtattggtaactaaattaatgttatttggcagATGACAACAGCAATAGCGATTGAAGATGTTCGTAGGGAGGTGAAAATTTTAAAAGCTTTGTCTGTGCATAAGAATTTGGTCAAATTTCACGATGCATGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaattcttgcttgataatgatggttatcgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTACGGAGGGAGGTCAAAATGTTGAAGGCTTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
tttttgt CT-rich tract
taattaactgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatgaattaatctttgattttcaagcttttgtgaatctcaccttaaaattcttgcttgataatgatggttatcgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTACGGAGGGAGGTCAAAATGTTGAAGGCTTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
- - - - - - - - - - ttcaagc
- - - - - - - - - - - - - -ttttgtg
- - - - - - - - - - - - - - - - - - -ctcacct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatggtt