Sequence
atgc intronic sequence ATGC exonic sequence...atattgtcaggtgagtttctcttcttgggcatcaagattgattggttctctagagtgagcaatgtccaattttggtaacattagtgaactcttgctacagATATTATTGGGGCTTCCTTTCCTGGTTTCATATCCAGTTGCATACATATCAAGAGCCTTCAATCTTGGCCGTGTCTTCATCCATTTCTG
Basic information
species | Glycine max |
transcript | GLYMA19G39740.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G39740.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g07720.3 (Oryza sativa), 3'ss of exon 6
atattgtcaggtgagtttctcttcttgggcatcaagattgattggttctctagagtgagcaatgtccaattttggtaaca-ttagtgaactcttgctacagATATTATTGGGGCTTCCTTTCCTGGTTTCATATCCAGTTGCATACATATCAAGAGCCTTCAATCTTGGCCGTGTCTTCATCCATTTCTG
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acatgaaaatgtttgtggtactttaatcagctagggagtgattagatgaatatgcagcatcaca-ctattgatgctaatgcttcacgtttcctatctatagGTTTTGTTGGGTATGCCATTCTTGTTATCACATCCAGTTGAGTACATCTCACGAGCATTCAATCTTGGGCGTGTCTTCATCCATTTCTG
upper sequence: GLYMA19G39740.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0005g00130.t01 (Vitis vinifera), 3'ss of exon 7
atattgtcaggtgagtttctcttcttgggc-atcaagattgattggttctcta---gagtgagcaatgtccaattttggtaac--attag-tgaactcttgctacagATATTATTGGGGCTTCCTTTCCTGGTTTCATATCCAGTTGCATACATATCAAGAGCCTTCAATCTTGGCCGTGTCTTCATCCATTTCTG
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------ctaggtgagttggactacatctgctattgatgttatggaggacattgtctgattgaggtattcatatgtttgccctcctattgggtgaatggttg-tgcagATTCTGGTGGGGCTACCTTTTATTGTATCACACCCAGTTGCATATATATCAAGGGCTTTTAATCTTGGGCGTGTCTTCATCCACTTTTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|151396065|gb|EV265942.1|EV265942EST: TGGATATCAGCGGCGTGTTATTGGCATTATCTGGCGCAGCACTGGTTCAG ATATTATTGGGGCTT
genomic: TGGATATCAGCGGCGTGTTATTGGCATTATCTGGCGCAGCACTGGTTCAGgtcacttact ... cttgctacagATATTATTGGGGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctctagagtgagcaatgtccaattttggtaacattagtgaactcttgctacagATATTATTGGGGCTTCCTTTCCTGGTTTCATATCCAGTTGCATACATATCAAGAGCCTTCAATCTTGGCCGTGTCTTCATCCATTTCTG
tggtaac putative branch site (score: 2)
ctcttgct putative PPT
taacatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atattgtcaggtgagtttctcttcttgggcatcaagattgattggttctctagagtgagcaatgtccaattttggtaacattagtgaactcttgctacagATATTATTGGGGCTTCCTTTCCTGGTTTCATATCCAGTTGCATACATATCAAGAGCCTTCAATCTTGGCCGTGTCTTCATCCATTTCTG
- - - - - - - - - - cttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtgaac