Sequence
atgc intronic sequence ATGC exonic sequence...actgttttctgatgtctgatggataatatattattattaggtttctacactttgtattgtccatttgttctatatattcttctaaggtcattttattcagGAACTGTGCGGCGGTTTCTTGAGAAGCAGAAAGACAATATAACAGCTGTTGTCTTTTGCACTACCAGCACAACTGATACTGAGATATATAAAAG
Basic information
species | Glycine max |
transcript | GLYMA01G06730.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G06730.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g05660.1 (Oryza sativa), 3'ss of exon 5
---------------------------------------------------------------------------------------actgttttctgatgtctgatggataatatattattattaggtttctacactttgtattgtccatttgttctatatattcttctaaggtcattttattcagGAACTGTGCGGCGGTTTCTTGAGAAGCAGAAAGACAATATAACAGCTGTTGTCTTTTGCACTACCAGCACAACTGATACTGAGATATATAAAAG
|| | | || | | | || || ||||| | || ||| || | || | || | | || | | | || | |||||||||| | || ||||| ||||||||||||| ||| ||||| |||||||||||||| ||||| | || ||||||| ||||||||||| |
gtgagttatctgatcaatagtttcttctgccttttgttatctttcgctgtttgattatttctactactcttatgcgattgccttactggtggagacagtagtttctttctttatgaatgattatctg--ttacacatttagcttttcctggttttaattcccgacttttttggatgatggtgaacagGAACTGTTAGACGTTTTCTGGAGAAGCAGAAAGGCAAAATAACTGCTGTTGTCTTTTGTACTACTACATCATCTGATACAGAGATATATAAGCG
upper sequence: GLYMA01G06730.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 5
--actgttttctgatgtctgatggataatatattattattaggtttctacactttgtattgtccatttgttctatatattcttctaaggtcattttattcagGAACTGTGCGGCGGTTTCTTGAGAAGCAGAAAGACAATATAACAGCTGTTGTCTTTTGCACTACCAGCACAACTGATACTGAGATATATAAAAG
| | ||| | | || || | || | | | | | || |||| || | |||| || || || || |||| |||||| || ||| |||||||||||||||||||||| || || || || ||||||||||| || ||||||| ||| |||||||||||||||||||||
atatgtaggttggatatgtagatgagtatgttttggaagttgagtgttctttattttattctcggat-gttcaattcatcgtttatttgtt-ttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacactttgtattgtccatttgttctatatattcttctaaggtcattttattcagGAACTGTGCGGCGGTTTCTTGAGAAGCAGAAAGACAATATAACAGCTGTTGTCTTTTGCACTACCAGCACAACTGATACTGAGATATATAAAAG
ttttattc CT-rich tract
atttgttctatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actgttttctgatgtctgatggataatatattattattaggtttctacactttgtattgtccatttgttctatatattcttctaaggtcattttattcagGAACTGTGCGGCGGTTTCTTGAGAAGCAGAAAGACAATATAACAGCTGTTGTCTTTTGCACTACCAGCACAACTGATACTGAGATATATAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - -tgatgtc
- - - - - - - - - - - - - - - - - - - - - -tctacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatttg