Sequence
atgc intronic sequence ATGC exonic sequence...gtttctggttcagggtgtttcctgtgttttttctttttctaatcaagtttgaaccctagctcccaaactcttaaatattccactttaaaccccttggcagGTGGAGCGGTTGCTTTCAGCTGAACAAAAGGCTACAGATTATCGATCACCTGATGATGGAATGGCTCCTGACCACCGGGCAACCAGTGCCTGCACAAG
Basic information
species | Glycine max |
transcript | GLYMA07G05160.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os12g13590.1 (Oryza sativa), 3'ss of exon 18
---------------------------------------------------gtttctggttcagggt--gtttcctgtgttttttctttttctaatcaagtttgaaccctagctcccaaactcttaaatattccactttaa-accccttggcagGTGGAGCGGTTGCTTTCAGCTGAACAAAAGGCTACAGATTATCGATCACCTGATGATGGAATGGCTCCTGACCACCGGGCAACCAGTGCCTGCACAAG
|||| |||| | | | | | || |||| ||| | | | | | |||| | | | || |||| ||||| || | ||||| || | ||||| |||||||||||||||||| |||| ||||||||| || || || || || |||||| ||| |||| |||
gttcgctcctatctcattacaggcacactgttaggtgtttgtgtcttgttagtttgacattcatgatcagcgaatcagatatgttacttttggtgtcactgtgcatcttcaacgtttgg----ttaagtgtgtgcttctatcgttgcttgacagGTTGAAAGATTGCTGTCTTCAGAACAGAAGGCTACAGATTATCGAACACCAGATGATGGAGCTGCACCGGATCATCGACCAACCAATGCTTGCATAAG
upper sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM5G823484_T01 (Zea mays), 3'ss of exon 4
------------------------------gtttctggttcagggtgtttcctgtgttttttctttttctaatcaagtt--tgaacc-------ctagctcccaaactcttaaatattccact---------ttaaaccccttggcagGTGGAGCGGTTGCTTTCAGCTGAACAAAAGGCTACAGATTATCGATCACCTGATGATGGAATGGCTCCTGACCACCGGGCAACCAGTGCCTGCACAAG
| || | | | | ||||| | | || | || |||| || | |||| | | || ||| |||| | | || | | |||| || | ||| | || | ||||| |||||||||||||||||| |||| ||||||||| || || || || ||| |||| | ||| || | |||
gtgtgtacctcttttcttctttcatttccttatattgtctgactccatattagctgtttatgccttgtttactcaatttgttaaaccacacaagtcatttttcatgtcattagccattctgatggtgatgcataaatgatacttgtagGTTGAAAGATTGTTGTCTTCGGAACAGAAGGCTACAGATTATCGAACACCAGATGATGGAGCTGCACCAGATCATCGGCCAACTAATGCTTGTATAAG
upper sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 18
lower sequence: AT5G12370.1 (Arabidopsis thaliana), 3'ss of exon 19
--------------gtttctggttcagggtgtttcctgtgttttttct---------ttttctaatcaagtttga-accctagctcccaaactcttaaatattccactttaaaccccttggcagGTGGAGCGGTTGCTTTCAGCTGAACAAAAGGCTACAGATTATCGATCACCTGATGATGGAATGGCTCCTGACCACCGGGCAACCAGTGCCTGCACAAG
|| | | || | | || | || | ||| | ||| | || | | | |||| | |||| | || | | | | || ||||| || || | |||||| |||| || ||| |||| |||||| ||||| ||||||||||||| ||| |||||||||| |||| | |||||||| |||
gttagttcttttttgtgtacattacaaacagagccatgaggttcaaccctgaacaggtttaggagtcatgcttaatattttctttcccctcattttaaggactctaatatggtcttttt--cagGTTGATAGGCTACTTTCATCTGAGCAGAAGTCTACTGATTATAGATCAACTGATGATGGAATTGCTTCTGACCACCGTCCAACAAATGCCTGCATAAG
upper sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 18
gtttctggttcagggtgtttcctgtgttttttctttttctaatcaagtttgaaccctagctcccaaactcttaaatattccactt-taaaccccttg-gcagGTGGAGCGGTTGCTTTCAGCTGAACAAAAGGCTACAGATTATCGATCACCTGATGATGGAATGGCTCCTGACCACCGGGCAACCAGTGCCTGCACAAG
|| || | | || | | || | | | || | | || | | | || || ||| |||| | |||| ||||||||||||||| || ||||||||||| ||||| ||||||||||| | |||||||||||||| |||||||| || ||| |||| | ||||||||| ||
--gcttgaatcttcttctactctttcagcatcacttatttggtgctcttatgattttcattcttatgttaagatattttgttcttgtaaaactcttgtgcagGTGGAGCGGTTACTATCAGCTGAACAGAAGGCAACAGATTATCGGTTGCCTGATGATGGAATTGCTCCTGATCATCGGCCAACAAATGCCTGCACTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtttgaaccctagctcccaaactcttaaatattccactttaaaccccttggcagGTGGAGCGGTTGCTTTCAGCTGAACAAAAGGCTACAGATTATCGATCACCTGATGATGGAATGGCTCCTGACCACCGGGCAACCAGTGCCTGCACAAG
cccctt CT-rich tract
aaactcttaaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttctggttcagggtgtttcctgtgttttttctttttctaatcaagtttgaaccctagctcccaaactcttaaatattccactttaaaccccttggcagGTGGAGCGGTTGCTTTCAGCTGAACAAAAGGCTACAGATTATCGATCACCTGATGATGGAATGGCTCCTGACCACCGGGCAACCAGTGCCTGCACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
gtttctg
- - - - - - gggtgtt
- - - - - - - - - - cctgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - -ccctagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaaact