Sequence
atgc intronic sequence ATGC exonic sequence...aatatttaatctttatactatttcctttttttttaaaaaaaattatgatccctaatttattcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
Basic information
species | Glycine max |
transcript | GLYMA07G37050.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 5
aatatttaatctttatac-tatttcctttttttttaaaaaaaatta-tgatccctaatttat-tcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
|| || | | | | ||| || | | || | || || |||| | | | | | | |||| | | || ||||| |||||||||||| | |||||| | || || || |||||||| ||||||||||||||| || || || ||||| |||||||| || || |||||||| ||||
---tttcaacttacacaaatgattctattacagtagtattgtatcactgcatgctgatttttgttttcacatgccccctgaattgacagttttcattcttcagGTTACTTTTGTTGAAGCTCTTGACCAGCTAATGCCTGGTTTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTCCTTATCAACCCTCGGAATATAGACT
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
-------aatatttaatctttatactatttcctttttttttaaaaaaaattatgatccctaatttattcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
| | || | || | || | | || || || | | | || |||| || ||| |||| | |||||| ||||||||||||| | |||||| | || || || |||||||||||||||||||||||| || || || ||||| || ||||| ||||| ||||| |||||||
gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaat-ttactcaattcaaaattgg------gcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 5
lower sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 5
-aatatttaatctttatactatttcctttttttttaaaaaaaattatgatccctaatttattcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
| | ||| || | || |||| || || | | | ||||| || | | | | | | | || ||||||| |||||||||||||| | ||||| || |||||||||||||||||||| || || ||| | ||||||||||| | |||||||| | || |||||||
ttttgtgtaaatagtagaaaataagattttaaggtaccaatctgttggtttttcgatttaaat-tgtagttactgatcgaaaacggaaaccttttgtgcagGTAACTTTTATAGAAGCACTGGATCAGCTAATGCCTGGATTTGATCCTGAGATCAGTAAGCTAGCTCAGAGGGTTTTGATAAATCCAAGAAAGATTGACT
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 5
aatatttaatctttatactatttcctttttttttaaaaaaaattatgatccctaatttattcctgaaaagattag---caaattaataattggtattct--gcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
| | | | || | | | |||| || || |||| | | | ||| || | || || || | || | ||||| |||||||| || || | |||||||| |||||||||||||||||||| || || ||| ||||||| ||||| || |||||| | | || |||||||
----tcgagcaaatgggcgatagc-tatattttgcttaaggtttgtgatgctctgcaactccaggaagtgaccaagctcaggggaactcttttttttttttacagGTAACTTTTATTGAGGCACTGGATCAACTAATGCCTGGATTTGATCCTGAGATCAGTAAGCTGGCTCAAAGGGTTCTAATAAATACAAGAAAAATTGACT
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ16882 (Selaginella moellendorffii), 3'ss of exon 5
aatatttaatctttatactatttcctttttttttaaaaaaaattatgatccctaatttattcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
|| || | || ||||| || | | |||| | | | |||||| |||||| | |||||| | |||||||| ||||| || |||||||||||||| | ||| | ||||||||| | || || ||||| || || ||||| |
----------------------------------------gtttgcgagtttttcttctttcct-------ttttctacagaatacgcgatgt---gcagGTGACTTTTGTGGAAGCTCTGGATCAACTGATGCCAGGCTTTGATCCTGAAATCGGGAAGCTTGCTCAGAGGCTGCTGATCAATCCTCGAAAAATTGATT
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ06739 (Selaginella moellendorffii), 3'ss of exon 5
aatatttaatctttatactatttcctttttttttaaaaaaaattatgatccctaatttattcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
|| ||| ||| | || | | |||| | | | |||||| |||||| | |||||| | |||||||| ||||| || |||||||||||||| | ||| | ||||||||| |||| || || || || || ||||| |
-------------------------------------------------gtttagttt-ttcttctttcctttttctatagaatacgcgatgt---gcagGTGACTTTTGTTGAAGCTCTGGATCAACTGATGCCAGGCTTTGATCCTGAAATCGGGAAGCTTGCTCAGAGGCTCCTGATCAACCCTCGAAAAATTGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatccctaatttattcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
aattaat putative branch site (score: 3)
aaaagattagcaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatatttaatctttatactatttcctttttttttaaaaaaaattatgatccctaatttattcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG