Sequence
atgc intronic sequence ATGC exonic sequencegtcagttctgtgtaggaataagattcttggcactaatagctatgactgtgttatttcaatcagcctagtgtatttgttccattctcgcttaatctgtggttcttctccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTCGTGGATACCAATATTGTCGCATTGATGGAAATACTGGTGGAGACGATCGAGATGCTT
Basic information
species | Glycine max |
transcript | GLYMA07G38050.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 10
gtcagttctgtgtaggaataagattcttggcactaatagctatgactgtgttatttcaatcagcctagtgtatttgttccattctcgcttaatctgtggt-tcttctccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTCGTGGATACCAATATTGTCGCATTGATGGAAATACTGGTGGAGACGATCGAGATGCTT
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---------gtccacatttttatcttgtgttttttttatatataatgcttttctgcctat--gttttatgttttcataacatttgtgtatacacaactgtgtatcctgcagATGACTAGGCTCTTGGACATCTTGGAAGATTATCTGATGTACAAGGGGTATCAATATTGCCGAATTGATGGGAATACTGGTGGTGAAGATCGTGATGCTT
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 7
--------------------------------------------gtcagttctgtgtaggaataagattcttggcactaatagctatgactgtgt--------tatttcaatca--gcctagt-gtatttgt-tccattctcgcttaatctgtggttcttctccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTCGTGGATACCAATATTGTCGCATTGATGGAAATACTGGTGGAGACGATCGAGATGCTT
|| | ||||| | | | |||| ||| ||| | ||| | | | | || || | | | | | || | | | | || |||||||| ||||| | || || | ||||||||||| |||| | | ||||| || |||||||| |||||||||||||| |||||||| ||||| ||||| |
gtgtgttttccaatcccatgcagatttgaatgcattatttatttagcaagtgtgtgttaggagatatcagacaccactctggatggtgagcatgtgcacagtgcacctcattaaaaacttggttgtcctagaatttttatttgcctgacatagcaccatcctgcagATGACCAGGCTTTTGGATATCTTGGAAGATTATCTTATGTATAGGGGATATCAGTATTGTCGAATTGATGGAAATACAGGTGGAGAAGATCGTGATGCAT
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 10
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 10
--------------------------------------------------gtcagttctgtgtaggaataagattcttggcactaatagctatgactgtgt------tatttcaatcagc-ctagtgtatt---tgttccattctcgcttaatctgtggttcttctccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTCGTGGATACCAATATTGTCGCATTGATGGAAATACTGGTGGAGACGATCGAGATGCTT
|| || || | || || ||| | | ||| | |||| | ||| | ||| || | | | | | | | | | | | | || |||||||| ||||| | || || | ||||||||||| |||| | | || || || |||||||| ||||| |||||||| |||||||| ||||| ||||| |
gtgattgttttccattgccatgcagatttgaatgcattattcgttagcaagtgtgtattggg-agatatcagacaccgctcgtgggatgctgagcatgtgcacagtgcacctcattaagcactcgcttgtcctataattttcctttgtctgacatcgcatcatcctgcagATGACCAGGCTTTTGGATATCTTGGAAGATTATCTTATGTATAGAGGTTATCAGTATTGTCGAATTGACGGAAATACAGGTGGAGAAGATCGTGATGCAT
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 10
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 10
---gtcagttctgtgtaggaataag-attcttggcactaatagctatgactgtgttatttcaatcagcctagtgtatttgttccattctcgcttaatctgtggttcttctccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTCGTGGATACCAATATTGTCGCATTGATGGAAATACTGGTGGAGACGATCGAGATGCTT
||| | | | ||||| ||| | | | || || | | | | | | ||| || | | ||||| | | | | | || ||| |||||||| ||||| | || || || || ||||| || |||| |||||| ||||| || || || |||||||||||||||||||| ||||| ||||||||||
gtattcattaacgcaaacaaataattgttcctatctttgattccttt---tttctgagtgatatctttcttggttctttgtgcttattccaacgattttgctcatctgtatcagATGACAAGGCTTTTGGATATTCTCGAGGATTACCTAATGTATCGTGGTTACCAGTACTGCCGTATTGATGGAAATACTGGTGGTGACGAACGAGATGCTT
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 10
--------------------------gtcagttctgtgtaggaataagattcttgg--cactaatagctatgactgtg--ttatttcaa----tcagcct-agtgtattt---gttccattctcgcttaatctgtggttcttc--------tccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTCGTGGATACCAATATTGTCGCATTGATGGAAATACTGGTGGAGACGATCGAGATGCTT
| |||| || | || | | | | | |||| |||| ||||| | ||| | | ||||||| ||| ||| | | | || | | | | |||||||| ||| |||| ||||| ||||||||||| | |||||||| ||||||| |||||||| |||||||||||||| || ||||| ||||| ||||| |
gtcagttgctgtctggaatcaaaatcttgagttatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttg-tggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatcagcctagtgtatttgttccattctcgcttaatctgtggttcttctccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTCGTGGATACCAATATTGTCGCATTGATGGAAATACTGGTGGAGACGATCGAGATGCTT
gcttaat putative branch site (score: 4)
ttcttctcc putative PPT
tatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagttctgtgtaggaataagattcttggcactaatagctatgactgtgttatttcaatcagcctagtgtatttgttccattctcgcttaatctgtggttcttctccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTCGTGGATACCAATATTGTCGCATTGATGGAAATACTGGTGGAGACGATCGAGATGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG