Sequence
atgc intronic sequence ATGC exonic sequencegtatcatttgtcacatttgcatgctaatagaatcaagtgtcagacgtcagtcagaaaagacacataaaataaaatgtttgtattattgaaatattagaggcttattttgtgtaaatgcagGTCAATGGCAATCTTGTTTCTCCTGCTCATGTACTTGCAAATGCAGAAGTTGTAGAGATAATCACATATAAT
Basic information
species | Glycine max |
transcript | GLYMA19G40050.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os03g22160.1 (Oryza sativa), 3'ss of exon 18
gtatcatttgtcacatttgcatgctaatagaatcaagtgtcagacgtcagtcagaaaagacacataaaataaaatgtttgtattattgaaatattagag-gcttattttgtgtaaatgcagGTCAATGGCAATCTTGTTTCTCCTGCTCATGTACTTGCAAATGCAGAAGTTGTAGAGATAATCACATATAAT
|| | | |||| || | || || || |||| | | ||| || || | | | ||||| ||||||||||| ||||| || ||||||||||||||||| |||||||| ||||| || | ||| ||
------------------------------------------------------gttagttatggataatagcat-tatg-atcatcattgtatttgtgtgctcatgttct-tcctttcagGTGAATGGCAATCTAGTTTCACCAATCCATGTACTTGCAAATGCTGAAGTTGTGGAGATTATAATTTATGAT
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G353147_T01 (Zea mays), 3'ss of exon 17
gtatcatttgtcacatttgcatgctaatagaatcaagtgtcagacgtcagtcagaaaagacacataaaataaaatgtttgtattattgaaatattagaggcttattttgtgtaaatgcagGTCAATGGCAATCTTGTTTCTCCTGCTCATGTACTTGCAAATGCAGAAGTTGTAGAGATAATCACATATAAT
||| |||| | ||| | | | | | | ||||| || | | | | |||| | || | || ||||||| ||||||||||| ||||| || |||||||||||||||||| ||||| || ||||| || || ||| ||
-----------------cacattctaaaaaaatagcctactccattatttatattacaattcctcaaaatgaaggg---aaacaaacggggccttagtgttttcatatgctcttttgcagGTGAATGGCAATCTGGTTTCACCAATTCATGTACTTGCAAATGCTGAAGTGGTGGAGATTATAACTTATGAT
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 18
gtatcatttgtcacatttgcatgctaatagaatcaagtgtcagacgtcagtcagaaaagacacataaaataaaatgtttgtattattgaaatattagaggcttattttgtgtaaatgcagGTCAATGGCAATCTTGTTTCTCCTGCTCATGTACTTGCAAATGCAGAAGTTGTAGAGATAATCACATATAAT
|||| || |||| |||| | || | | || ||| | | ||| | || ||| ||| | | || | | | | | |||| |||||| ||||||||||||| |||||||||||||| ||||||||||| ||||| || ||||| |||||||| || |||||
gtatt-cttctcacttttgaccggtataatattctttcttcatatctgagtgtttctccaggcaaaaaggcaaa----agaaggatagtatcaccacatgctttttttgt-----tgcagGTCAATGGGAATCTTGTTTCTCCCATGCATGTACTTGCTAATGCTGAGGTTGTGGAGATAATTACCTATAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaataaaatgtttgtattattgaaatattagaggcttattttgtgtaaatgcagGTCAATGGCAATCTTGTTTCTCCTGCTCATGTACTTGCAAATGCAGAAGTTGTAGAGATAATCACATATAAT
aaaatgtttgtattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcatttgtcacatttgcatgctaatagaatcaagtgtcagacgtcagtcagaaaagacacataaaataaaatgtttgtattattgaaatattagaggcttattttgtgtaaatgcagGTCAATGGCAATCTTGTTTCTCCTGCTCATGTACTTGCAAATGCAGAAGTTGTAGAGATAATCACATATAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT