Sequence
atgc intronic sequence ATGC exonic sequencegtatttttttggttgttgcttttttcaaattttacttctgcatgttccattttcaccaactaattgtttatagagccctagctgatccaaataaagttaatcatatgttttccttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGCTTGGTTGGAAGTGCAACACCAA
Basic information
species | Glycine max |
transcript | GLYMA03G37450.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G37450.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G353147_T01 (Zea mays), 3'ss of exon 14
gtatttttttggttgttgcttttttcaaattttacttctgcatgttccattttcaccaactaa--ttgtttatagagccctagctgatccaaataaagttaatcatatgttttccttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGCTTGGTTGGAAGTGCAACACCAA
| | || | |||| | | || | || | | ||| | |||| || | | | | |||||| | || || |||||||| ||||||||||| |||||||| ||||| || || ||||||||||| ||||| ||||| ||| | | | || ||||| || || | |||
-----------------------gtaatgttgcctacccatttgttaaactgaaactggcaaatatcaagcaaagaatgtattttcatcctgttactgattgtgacatgttt--------aaaattccaactgtattgcagATAAGAACAGAAGATATGGATTTAATAGCAGAAAGAGGCATTGCTGCACATTACAGTGGAAGAAGGGTGGCTTCTGGACCTGTTGGCCTTGGAATATCAA
upper sequence: GLYMA03G37450.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G416698_T01 (Zea mays), 3'ss of exon 8
gtatttttttggttgttgcttttttcaaattttacttctgcatgttccattttcaccaactaattgtttatagagccctagctgatccaaataaagttaatcatatgttttccttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGCTTGGTTGGAAGTGCAACACCAA
||| | | | ||| | | || | |||| | || ||| | || || ||| | || | | ||| || || ||| |||| ||||||||||| |||||||| ||||| || || ||||||||| | ||||| ||||| |||| | | || | || ||| | || || | |||
-------------------------gtaatgctgcctactcatttgttaacttga--aactggcaaat-atcaagcaatgaatgtatttcatcttgttgttgattgtgacttgtgtttaaaattccaactgtattgtagATAAGAACAGAAGATATGGATTTAATAGCAGAAAGAGGCATTGCTACACATTACAGTGGAAGAGGAGTGGTTTCTGGACCTGTTCGGCTTGGAATATCAA
upper sequence: GLYMA03G37450.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G416698_T02 (Zea mays), 3'ss of exon 7
gtatttttttggttgttgcttttttcaaattttacttctgcatgttccattttcaccaactaattgtttatagagccctagctgatccaaataaagttaatcatatgttttccttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGCTTGGTTGGAAGTGCAACACCAA
|||| ||| | | | | | ||| | | | ||| | | || | |||| | || ||| | || || ||| | || | | ||| || || ||| |||| ||||||||||| |||||||| ||||| || || ||||||||| | ||||| ||||| |||| | | || | || ||| | || || | |||
gtatgtttcatttggaagttcaggt--aatgctgcctactcatttgttaacttga--aactggcaaat-atcaagcaatgaatgtatttcatcttgttgttgattgtgacttgtgtttaaaattccaactgtattgtagATAAGAACAGAAGATATGGATTTAATAGCAGAAAGAGGCATTGCTACACATTACAGTGGAAGAGGAGTGGTTTCTGGACCTGTTCGGCTTGGAATATCAA
upper sequence: GLYMA03G37450.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 15
gtatttttttggttgttgcttttttcaaattttacttctgcatgttccattttcaccaactaattgtttatagagcccta--gctgatccaaataaa--gttaatcatatgttttccttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGCTTGGTTGGAAGTGCAACACCAA
||| | |||| | || ||| | | | | | || | ||||| ||| || | || ||| | | | || ||||| ||||| ||||| |||||| ||||||||||||| || ||||||||||||||||||||||||| || || || || ||||| |||||||
-----------------------------------------atggtgaattt--aatggttagaattttgttaacctggaatgttgctttgaataacatgttgatttttaaaattatagattgcttttatctgtgtttgacagATAAGAACTGAAGAGATGGATGTGATAGCTGAGAGAGGGATTGCTGCTCATTATAGTGGGAGAGTGTTCGTTGGTGGTTTAATTGGACGTGCAACCAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atccaaataaagttaatcatatgttttccttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGCTTGGTTGGAAGTGCAACACCAA
agttaat putative branch site (score: 4)
tactcttt putative PPT
aataaagttaatcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttttttggttgttgcttttttcaaattttacttctgcatgttccattttcaccaactaattgtttatagagccctagctgatccaaataaagttaatcatatgttttccttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGCTTGGTTGGAAGTGCAACACCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG