Sequence
atgc intronic sequence ATGC exonic sequencegtaacctatttgatctaatggtcacttccttcaatttctatcttttagattctttttattggatgctaaagttaaattataatctatttattctgatgagggcagGAGATTCAAAAAATCGTTGTCTTTGAAGGCGCATTTGAGAAGATTTTCAGTATCATCAAAGAGGAGGGAGGTTCAGATGGCGGTGTGGTTGTACAG
Basic information
species | Glycine max |
transcript | GLYMA19G08920.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G08920.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G27530.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaacctatttgatctaatggtcacttccttcaatttctatcttttagattctttttattggatgctaaagttaaattataatctatttattctgatgagggcagGAGATTCAAAAAATCGTTGTCTTTGAAGGCGCATTTGAGAAGATTTTCAGTATCATCAAAGAGGAGGGAGGTTCAGATGGCGGTGTGGTTGTACAG
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--------------gtga-gacctcctggttatatttgtaactgttccttttcttctgccttgagccgagggcagccattgatcgatcaatttt-acatttgtagGAGATCCAAAAAATTGTTGTCTTTGAAGGTGCTTTTGAAAAGATTTTTAGCATCATTAAGGAGGAAGGGGGGTCAGATGGCGATGTGGTTGTGCAG
upper sequence: GLYMA19G08920.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0139g00160.t01 (Vitis vinifera), 3'ss of exon 8
gtaacctatttg-atctaatggtca------cttccttcaatttctatcttttagattctttttattgga---tgctaaagttaaattataatctatttattctgatgagggcagGAGATTCAAAAAATCGTTGTCTTTGAAGGCGCATTTGAGAAGATTTTCAGTATCATCAAAGAGGAGGGAGGTTCAGATGGCGGTGTGGTTGTACAG
|| | ||| | ||||||| ||| || ||| | | ||| | | | ||| || | || | | | | || || || | || | |||| ||||||||||| | |||||||| || |||||||||||||| || || ||||| || ||||| ||||| ||||| || ||||| ||||| |||
gtgggttttttctgtttaatggttgtttgaccttttttttttttttttttttctggtacctttccttacaatgtgtttagttctgcctcaaactaatataattcaataattttagGAAATTCAAAAAATTTTGGTCTTTGAGGGTGCATTTGAGAAGATCTTTAGCATCATTAAGGAGGAAGGAGGATCAGAAGGAGGTGTTGTTGTGCAG
upper sequence: GLYMA19G08920.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ37740 (Selaginella moellendorffii), 3'ss of exon 8
gtaacctatttgatctaatggtcacttccttcaatttctatcttttagattctttttattggatgctaaagttaaattataatctatttattctgatgagggcagGAGATTCAAAAAATCGTTGTCTTTGAAGGCGCATTTGAGAAGATTTTCAGTATCATCAAAGAGGAGGGAGGTTCAGATGGCGGTGTGGTTGTACAG
| | |||| || || | || |||| | ||| | | | | |||||||||||||| || ||||| ||||||||||| ||||||| | || || | || || || |||||||| || || || | ||||| |||
--------------------------------------------gtgggaccttt--gatgtatttgagctttcgtttatgcttgtttttcttttttaa---cagGAGATTCAAAAGATTGTTGTTTTTGAAGGCGCTTTTGAGAGAGTGTTTCACATTGTAAAGGAAGAAGGAGGTTCGGACGGAGGGATTGTTGTCCAG
upper sequence: GLYMA19G08920.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ32105 (Selaginella moellendorffii), 3'ss of exon 8
gtaacctatttgatctaatggtcacttccttcaatttctatcttttagattctttttattggatgctaaagttaaattataatctatttattctgatgagggcagGAGATTCAAAAAATCGTTGTCTTTGAAGGCGCATTTGAGAAGATTTTCAGTATCATCAAAGAGGAGGGAGGTTCAGATGGCGGTGTGGTTGTACAG
| | |||| || || | || |||| | ||| | | | | |||||||||||||| || ||||| ||||||||||| ||||||| | || || | || || || ||||| || || || || | ||||| |||
--------------------------------------------gtgggaccttt--gatgtatttgagctttcgtttatgcttgtttttcttttctaa---cagGAGATTCAAAAGATAGTTGTTTTTGAAGGCGCTTTTGAGAGAGTGTTTCACATTGTAAAGGAAGAAGGAGGATCGGACGGAGGGATCGTTGTCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttttattggatgctaaagttaaattataatctatttattctgatgagggcagGAGATTCAAAAAATCGTTGTCTTTGAAGGCGCATTTGAGAAGATTTTCAGTATCATCAAAGAGGAGGGAGGTTCAGATGGCGGTGTGGTTGTACAG
taaagttaaattataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacctatttgatctaatggtcacttccttcaatttctatcttttagattctttttattggatgctaaagttaaattataatctatttattctgatgagggcagGAGATTCAAAAAATCGTTGTCTTTGAAGGCGCATTTGAGAAGATTTTCAGTATCATCAAAGAGGAGGGAGGTTCAGATGGCGGTGTGGTTGTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG