Sequence
atgc intronic sequence ATGC exonic sequence...gagttatctaatattcttgtcctttcacgtgtggttatgaaaatcttctgcatttctttgtcttatgattaaacatatggctgctacttgtgcgcaacagGTGGGTGGCAGCTCAGAGCATATTTTATCATCTTTACAATCAAGTGTCATACATGTCTCTGGATGAGATCTCTCCCTTAACATTTAGCATTGGAAACACC
Basic information
species | Glycine max |
transcript | GLYMA14G02930.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G02930.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os08g08840.2 (Oryza sativa), 3'ss of exon 4
---gagttatctaat-attcttgtcctttcacgtgtggttatgaaaatcttctgcatttctttgtcttatgattaaacatatggctgctacttgtgcgcaacagGTGGGTGGCAGCTCAGAGCATATTTTATCATCTTTACAATCAAGTGTCATACATGTCTCTGGATGAGATCTCTCCCTTAACATTTAGCATTGGAAACACC
||| | || ||| | | || | | || ||| | |||| ||| ||| | | || | ||| ||| |||||||| || || |||||| | || || || | ||||| || ||||| |||||||||||||||||||| ||||| || |||||||||||||| || ||
tatattgtatttgatgatttacaacatactacagcgtatgcagcaacacttgagtattttattga--tattacttaaattttggggatg--ttgaatattgtagGTGGGTTGCTGCACAGAGCGTTTTCTACCACTTATACAACCAGGTGTCTTACATGTCTCTGGATGAGATTTCTCCATTGACATTTAGCATTGGCAATACG
upper sequence: GLYMA14G02930.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G431314_T01 (Zea mays), 3'ss of exon 4
gagttatctaatattcttgtcctttcacgtgtggttatgaaaatcttctgcatttctttgtcttatgattaaacatatggctgctacttgtgcgca-acagGTGGGTGGCAGCTCAGAGCATATTTTATCATCTTTACAATCAAGTGTCATACATGTCTCTGGATGAGATCTCTCCCTTAACATTTAGCATTGGAAACACC
||| | | | | ||| | | ||| ||| || || | | | | || ||| | || | || |||| | | |||||| | || || |||||| | || ||||| | || || || ||||| ||||||||||| ||| |||||||||| || || ||||||||||| || ||
tagtgctgcccttattgaggacttatatattatgttggattaattttatgattgcatgtatattgatattttccctaacg-tgttactgtcgaatttatagGTGGATCGCTGCACAGAGCGTGTTCTATCACTTATATAACCAGGTGTCCTACATGTCTCTCGATCAGATCTCTCCATTGACGTTTAGCATTGGCAATACA
upper sequence: GLYMA14G02930.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0177g00300.t01 (Vitis vinifera), 3'ss of exon 3
gagttatctaatattcttgtcctttcacgtgtggttatgaaaatcttct-gcatttctttgtcttatgat-taaacatatggctgctacttgtgcgcaacagGTGGGTGGCAGCTCAGAGCATATTTTATCATCTTTACAATCAAGTGTCATACATGTCTCTGGATGAGATCTCTCCCTTAACATTTAGCATTGGAAACACC
|| || ||| | | ||||| | |||| | || | |||| || | || | | |||||| || |||| | ||||||||||| || ||||| |||| ||||| || |||||||| |||||||||||||| |||||||||||||||||||| || ||||||||||||||||||
--attccctgtgtttcccactcagttgtaagtggtagttgttttctttttgcttggcttttgctaaggaaatgtttgtgtggctgttatttgtacatggtagGTGGGTGGCGGCCCAGAGTGTATTCTATCACCTCTACAATCAGGTGTCATACATGTCGCTGGATGAGATCTCTCCCTTGACGTTTAGCATTGGAAACACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgcatttctttgtcttatgattaaacatatggctgctacttgtgcgcaacagGTGGGTGGCAGCTCAGAGCATATTTTATCATCTTTACAATCAAGTGTCATACATGTCTCTGGATGAGATCTCTCCCTTAACATTTAGCATTGGAAACACC
ttatgattaaacatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagttatctaatattcttgtcctttcacgtgtggttatgaaaatcttctgcatttctttgtcttatgattaaacatatggctgctacttgtgcgcaacagGTGGGTGGCAGCTCAGAGCATATTTTATCATCTTTACAATCAAGTGTCATACATGTCTCTGGATGAGATCTCTCCCTTAACATTTAGCATTGGAAACACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - cctttca
- - - - - - - - - - - - - - - - ggttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgctac