Sequence
atgc intronic sequence ATGC exonic sequence...aaaatgaactcatacttcaatcaaaatggatttaattgaatggctatgcttgcttctcttagactgactttaatttcaatttattctttaaccgttccagGTTTCAGGTGAAGAAGAAACAATTTTTCCGCAATTTTATGACTATAATGCTCTTTGGTGCAGTTGGTACTTTGATATCATTCTGCATAATATCACTAG
Basic information
species | Glycine max |
transcript | GLYMA17G02560.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 3
aaaatgaactcatacttcaatcaaaatggatttaattgaatggctatgcttgcttctcttagactga--ctttaatttcaatttattct--ttaaccgtt-ccagGTTTCAGGTGAAGAAGAAACAATTTTTCCGCAATTTTATGACTATAATGCTCTTTGGTGCAGTTGGTACTTTGATATCATTCTGCATAATATCACTAG
||| | | | || |||||| || | |||| | || || || | ||||| | ||| || | || | | ||||||||| || ||||| |||||||| ||||||||||||||||| || || | |||||||| || || || |||||||| || ||||| || ||||
-aaaacatttgaccctaacatcaaagtga--tagcctgaa--gttacttacattttatataagtgaagcttttaactgaaatgcatctttgtttataatcatcagGTTTCAAGTAAAGAAAAAACAATTCTTCCGCAATTTTATGACAATTATTTTATTTGGTGCTGTGGGGACATTGATATCCTTTGTGATAATCTCTCTAG
upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 3'ss of exon 2
aaaatgaactcatacttcaatcaaaatggatttaattgaatggctatgcttgcttctc----ttagactgactttaatttcaatttattctttaaccgttccagGTTTCAGGTGAAGAAGAAACAATTTTTCCGCAATTTTATGACTATAATGCTCTTTGGTGCAGTTGGTACTTTGATATCATTCTGCATAATATCACTAG
| | || | | | | | ||| || | || || | | | | || ||| | || || | | | || |||||| || || ||||||||||||||||||||||| || |||||||| | | | |||||||| |||| || | || || ||| | |||| || || |
----taatcttccagtaggaaattctgttacatcatttaaagtttaacattagtcagcaaggtgaagcttactgttcctttttttctctttctttcctgagcagGTTCCAAGTTAAGAAGAAACAATTTTTCCGCAACTTCATGACTATTACGTTGTTTGGTGCGATTGGGACCCTAATCTCTTTCAGTGTAATTTCCCTCG
upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G027851_T01 (Zea mays), 3'ss of exon 2
---aaaatgaactcatacttcaatcaaaatggatttaattgaatggctatgcttgcttctcttagactgactttaatttcaatttattctttaaccgttccagGTTTCAGGTGAAGAAGAAACAATTTTTCCGCAATTTTATGACTATAATGCTCTTTGGTGCAGTTGGTACTTTGATATCATTCTGCATAATATCACTAG
||||| || | || || | | | | || ||| || | || | | | | | || ||| | | || ||||||| ||||||||||||||||| || ||||| ||||| ||||| || | || || ||||| ||||| || ||||||| |||| || ||| || || |
aactgaatgatctgttgaatccatgacgccaatcccttctagtttg--atacttctttgacgtataatcaagattctcacagacgtttcctca-cctcaccagGTTCCAGGTGAAGAAGAAACAGTTCTTCCGGAATTTCATGACAATCACACTATTCGGTGCTGTTGGCACAATGATATCCTTCTTCACAATCTCTCTCG
upper sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 3
aaaatgaactcatacttcaatcaaaatggatttaattgaatggctatgcttgcttctcttagactgactttaatttcaatttattctttaaccgttccagGTTTCAGGTGAAGAAGAAACAATTTTTCCGCAATTTTATGACTATAATGCTCTTTGGTGCAGTTGGTACTTTGATATCATTCTGCATAATATCACTAG
|| | |||| | | ||| || || | || || | | || ||| ||| ||| |||||||||||| |||||||| |||||||| ||||| || ||||| || ||| | |||||||| |||| ||| | || ||||| || || ||| | |
--------------------gtaagttctttttatatagaatttcatgaaaaattgaa--agtcggaattgagt---aacacatttttt---tgttacagGTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcttgcttctcttagactgactttaatttcaatttattctttaaccgttccagGTTTCAGGTGAAGAAGAAACAATTTTTCCGCAATTTTATGACTATAATGCTCTTTGGTGCAGTTGGTACTTTGATATCATTCTGCATAATATCACTAG
ccgttcc CT-rich tract
tgactttaatttcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaatgaactcatacttcaatcaaaatggatttaattgaatggctatgcttgcttctcttagactgactttaatttcaatttattctttaaccgttccagGTTTCAGGTGAAGAAGAAACAATTTTTCCGCAATTTTATGACTATAATGCTCTTTGGTGCAGTTGGTACTTTGATATCATTCTGCATAATATCACTAG
- aatgaac
- - - - - - - - - - - - - - - - - - tgaatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgactt