Sequence
atgc intronic sequence ATGC exonic sequence...aaatagaattaatccctatatataattttaaacattccgcaagtttgtgtttaatgaatctatgtatccaatgtggatactaatatttaacttctcatagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACACGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
Basic information
species | Glycine max |
transcript | GLYMA02G07370.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G07370.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os11g32490.1 (Oryza sativa), 3'ss of exon 11
--------------------aaatagaattaatccctatatat--aatt---ttaaacattccgcaagtttgtgtttaatgaatctatgtatccaatgt---ggatact---aatatttaacttctc----atagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACACGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
| || ||||| | | || | || ||| || || || | | | | ||||| || | |||| | ||| ||| |||| || | | || || || || |||| ||||| |||||||||||| || |||||||| ||||| || |||||||| || || |||||||| ||||| ||||||
gtaagtggttaaacttatcatagtacaattatttcttaaacattagattcagttcggtatatatcagttgtataccgacatggtctat-tacacgatgttatgcttaccgagaatttttatctcttgtcaaacagATTTCAGGCCAATATGGTGTCTTACCAGAATTTGATTACAAAATCGATGTATGATAAACAGCTTGACAGTGGGAAAGGAACACTTCTGCATTTGTGTGAT
upper sequence: GLYMA02G07370.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g70390.1 (Oryza sativa), 3'ss of exon 11
aaatagaattaatccctatatataattttaaacattccgcaagtttgtg---tttaatgaatctatgtatccaatgtggatactaatatttaacttctcatagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACACGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
| | | ||| | || | ||| || | | ||| | | || || | ||| | ||| ||| | ||| | || ||||| ||||| ||| ||| ||| ||||| | || || | ||||||||||||||||| || || ||||| || || |||||||||||| | ||||||
--cttccctgattccttcagcattttcttatttatgatgatactttatttgctgtattggttgtattggacaaatttggtaaataa-gctacctttgattcagGTTTCAACAGAACATGGCAACATATCAAAACCTAATAACTCAATCAATGTATGACAAACAGCTAGATAGTGGGAAAGGCACACTTCTCCATCTCTGTGAT
upper sequence: GLYMA02G07370.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G527387_T01 (Zea mays), 3'ss of exon 11
----------------------------------------------------------aaatagaattaatccctatatataattttaaacattccgcaagt---ttgtgtttaatgaatctatgta--tccaatgtggatactaatatttaacttctc---------atagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACACGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
|| || || | |||||| | | | | ||||| || | ||| | | | | ||| | |||||| | |||| | || |||||| |||| |||||||||||||||| ||||||||| ||| |||||||| || || || || ||||| | || ||||| ||||| || || |||
gtaagtgattcaattcataataatacccaactaaaaaaattctcttgctaatatgtcactttataagtatcactaatatatgtctgaactcgtaaggcaagaatattacctctaacaatttggtcaaattcctggtaaaagactaatgatgggtttctgtctttccaaacagATTCCAAGCAAACATGGTCCAATACCAAAACTTGATTACAAAGTCGATGTATGATAAGCAGCTTGATAGTGGGAGAGGAACACTCCTCCACTTGTGCGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtttaatgaatctatgtatccaatgtggatactaatatttaacttctcatagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACACGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
cttctcat CT-rich tract
atactaatatttaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatagaattaatccctatatataattttaaacattccgcaagtttgtgtttaatgaatctatgtatccaatgtggatactaatatttaacttctcatagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACACGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
aaatagaa
- - - - - - - - - - - - - - - -acattcc
- - - - - - - - - - - - - - - - - - - - - gtttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaatgt