Sequence
atgc intronic sequence ATGC exonic sequence...gttatggactgaaaggttacaccacttacatattagcatttatatatatgagatattcgatcatgcatattttgcttattgaaaaaaatattattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAATCTGTAAGTGAGCTTGTGGAGCACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACC
Basic information
species | Glycine max |
transcript | GLYMA07G39320.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G456000_T01 (Zea mays), 3'ss of exon 4
---gttatggactgaaaggttacaccacttacatattagcatttatatatatgagatattcgatcatgcatattttgcttattgaaaaaaatattattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAATCTGTAAGTGAGCTTGTGGAGCACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACC
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aatatcttcatatcaggactaactttacatagctgtcatgat--aagttgatgcacctttagttcgcaaat-tctaagttactaatttgccaatgtgttttagGTCCTTGTGCGGAATATACCACCAGATCCTGATGAATCAATCAGTGAGCTTGTGGAACATTTCTTCCTTGTCAATCATCCTGATCATTATCTACAACACC
upper sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G22120.1 (Arabidopsis thaliana), 3'ss of exon 4
gttatggactgaaaggttacaccacttacatattagcatttatatatatgagatattcgatcatgcatattttgcttattgaaaaa--aatattattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAATCTGTAAGTGAGCTTGTGGAGCACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACC
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---------------gtaagactcctttcttccccttggtt-taaactttaaagact-gaacagctgtggccaacgatctaatacgtcgggatttgtgatagGTCCTTGTTAGGAATGTACCTCCGGACGCAGATGAATCTGTAAGTGAACTGGTAGAGCATTTTTTCCTGGTCAATCATCCTGATCACTACCTAACACATC
upper sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 3
--gttatggactgaaaggttacaccacttacatattagcatttatatatatgagatattcgatcatgcatattttgcttattgaaaaaaat---attattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAATCTGTAAGTGAGCTTGTGGAGCACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACC
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ttcatttaggtttactagttatacagctc-caaatt---atatattttcatgattccttccttttcat-tgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATCMapped 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|193528107|gb|FK484729.1|FK484729EST: TGAGATTGCAATTTCTTGCAGCTGAAAAACGCCGACCTGATCAATTTACG GTGCTCGTTAGAAACATTCCATCAGATCCTGATGAATCTGTAAGTGAGCTT
genomic: TGAGATTGCAATTTCTTGCAGCTGAAAAACGCCGACCTGATCAATTTACGgtaaagttga ... ttattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAATCTGTAAGTGAGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgagatattcgatcatgcatattttgcttattgaaaaaaatattattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAATCTGTAAGTGAGCTTGTGGAGCACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACC
ttattttc CT-rich tract
atgcatattttgctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatggactgaaaggttacaccacttacatattagcatttatatatatgagatattcgatcatgcatattttgcttattgaaaaaaatattattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAATCTGTAAGTGAGCTTGTGGAGCACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - ctgaaag
- - - - - - - - - acaccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa