Sequence
atgc intronic sequence ATGC exonic sequence...aatatcattattaggagtgcttggtgatttgattctttatttattgaagaatctgaaatttgcatcatcatgtatatttcttccttaattgcttatgcagTATGATGTGTATGGGGACCTTTTAGGCCTTCTGGGGGCGCATCCTGTGGCTCCACTAGTGACATTGCACCATCTTGATGTGGTGCAACCAATATTCCCAA
Basic information
species | Glycine max |
transcript | GLYMA16G29720.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G29720.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g03680.t01 (Vitis vinifera), 3'ss of exon 1
------------------------------------------------------------------------------------aatatcat-tattaggagtgcttggtgatttgattctttatttattgaagaatctgaaatttgcatcatcatgtatatttcttccttaattgcttatgcagTATGATGTGTATGGGGACCTTTTAGGCCTTCTGGGGGCGCATCCTGTGGCTCCACTAGTGACATTGCACCATCTTGATGTGGTGCAACCAATATTCCCAA
|||| | || | | || || |||| | | | || || || || || | | || || | || | || | ||||| ||||||||||||||||||| ||||| || |||||||||| || |||||||| ||||| | || || | |||||||||||||| ||| | || |||||||||
gttagggcatacaaatccatgggattagaagatgtcaggaattttcatacattctcaaaatcatatctgatgattcctcatttgtatatactgtagaaaggatgtttagtgactgaaattggtaccagtttaaa---ctcaactctatatttccaaggatgatgtatcttgttctgcttgtgcagTATGATGTGTATGGAGACCTATTGGGCCTTCTGGCAGCTCATCCTGTAACTCCATTGGTATCAATTCACCATCTTGATGTAGTGGACCCGATATTCCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagaatctgaaatttgcatcatcatgtatatttcttccttaattgcttatgcagTATGATGTGTATGGGGACCTTTTAGGCCTTCTGGGGGCGCATCCTGTGGCTCCACTAGTGACATTGCACCATCTTGATGTGGTGCAACCAATATTCCCAA
ccttaat putative branch site (score: 4)
atgtatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatatcattattaggagtgcttggtgatttgattctttatttattgaagaatctgaaatttgcatcatcatgtatatttcttccttaattgcttatgcagTATGATGTGTATGGGGACCTTTTAGGCCTTCTGGGGGCGCATCCTGTGGCTCCACTAGTGACATTGCACCATCTTGATGTGGTGCAACCAATATTCCCAA
- - - - - - - - -tgcttgg
- - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catcatg