Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttgtgactgcaacttcattatgtggactttcacactactgctaggaaacttgtcagcagtgtttgtcttctaaatctattcttatattgtactcttcagGTAGAGGAGGTTTACAACTTTTCCCAAGATGATTTGTTAACAGAAGATATCCTGATCCTTGACACGCACACAGAAGTGTTTGTTTGGATTGGTCAGTGTG
Basic information
species | Glycine max |
transcript | GLYMA19G32010.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G180988_T02 (Zea mays), 3'ss of exon 17
gtgagtttgtgactgcaacttcattatgtggactttcacact-actgctaggaaacttgtcagcagtgtt--tgtcttctaaatctattcttatattgtactcttcagGTAGAGGAGGTTTACAACTTTTCCCAAGATGATTTGTTAACAGAAGATATCCTGATCCTTGACACGCACACAGAAGTGTTTGTTTGGATTGGTCAGTGTG
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-------------------------gtcggtcctgttacacttgctcttcttagatctatattttgttttgcaaaattcagggtatctgattttatgggcttattcagGTAACTGAGATCTTCAACTTTTCCCAAGATGATTTGTTAACTGAAGACATGATGATACTTGACACACATGGTGAGGTTTTCATTTGGATTGGTCAGTGCG
upper sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G180988_T03 (Zea mays), 3'ss of exon 16
-gtgagtttgtgact--gcaacttcattatgtggactttcacact-actgctaggaaacttgtcagcagtgtt--tgtcttctaaatctattcttatattgtactcttcagGTAGAGGAGGTTTACAACTTTTCCCAAGATGATTTGTTAACAGAAGATATCCTGATCCTTGACACGCACACAGAAGTGTTTGTTTGGATTGGTCAGTGTG
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tcatcgttgttaaccagggagactggaggtcggtcctgttacacttgctcttcttagatctatattttgttttgcaaaattcagggtatctgattttatgGGCTTATTCAGGTAACTGAGATCTTCAACTTTTCCCAAGATGATTTGTTAACTGAAGACATGATGATACTTGACACACATGGTGAGGTTTTCATTTGGAT-----------
upper sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G047310_T01 (Zea mays), 3'ss of exon 15
gtgagtttgtgactgcaacttcattatgtggactttcacactactgctaggaaacttgtcagcagtgtttgtcttctaaatctattcttatattgtactcttcagGTAGAGGAGGTTTACAACTTTTCCCAAGATGATTTGTTAACAGAAGATATCCTGATCCTTGACACGCACACAGAAGTGTTTGTTTGGATTGGTCAGTGTG
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-----ttattgtcattaaccagggagactggaggtcggtcctcttacacttgctcttcttagatctatattttgttttggcatctgattttatgggcttattcagGTTACTGAGATCTTCAACTTTTCTCAAGATGATTTGTTAACTGAAGACATGATGGTACTTGACACACATGGTGAAGTTTTCATTTGGATTGGTCAGTATG
upper sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G047310_T02 (Zea mays), 3'ss of exon 17
gtgagtttgtgactgcaacttcattatgtggactttcacactactgctaggaaacttgtcagcagtgtttgtcttctaaatctattcttatattgtactcttcagGTAGAGGAGGTTTACAACTTTTCCCAAGATGATTTGTTAACAGAAGATATCCTGATCCTTGACACGCACACAGAAGTGTTTGTTTGGATTGGTCAGTGTG
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---------------------------gtcggtcctcttacacttgct------cttcttagatctatattttgttttggcatctgattttatgggcttattcagGTTACTGAGATCTTCAACTTTTCTCAAGATGATTTGTTAACTGAAGACATGATGGTACTTGACACACATGGTGAAGTTTTCATTTGGATTGGTCAGTATGMapped 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|11413325|gb|BF425336.1|BF425336EST: ATCTTTTAATAGAGGAAAGTTACAG GTAGAGGAGGTTTACAACTTTTCCCAAGATGATTTGTTAACAGAAGATATC
genomic: ATCTTTTAATAGAGGAAAGTTACAGgtgagtttgt ... tactcttcagGTAGAGGAGGTTTACAACTTTTCCCAAGATGATTTGTTAACAGAAGATATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaacttgtcagcagtgtttgtcttctaaatctattcttatattgtactcttcagGTAGAGGAGGTTTACAACTTTTCCCAAGATGATTTGTTAACAGAAGATATCCTGATCCTTGACACGCACACAGAAGTGTTTGTTTGGATTGGTCAGTGTG
ttctaaa putative branch site (score: 2)
tactcttc putative PPT
ttctaaatctattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttgtgactgcaacttcattatgtggactttcacactactgctaggaaacttgtcagcagtgtttgtcttctaaatctattcttatattgtactcttcagGTAGAGGAGGTTTACAACTTTTCCCAAGATGATTTGTTAACAGAAGATATCCTGATCCTTGACACGCACACAGAAGTGTTTGTTTGGATTGGTCAGTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT